Background The genomes of worldwide poultry breeds divergently selected for performance and other phenotypic traits may also be affected by,and formed due to,past and current admixture events.Adaptation to diverse env...Background The genomes of worldwide poultry breeds divergently selected for performance and other phenotypic traits may also be affected by,and formed due to,past and current admixture events.Adaptation to diverse environments,including acclimation to harsh climatic conditions,has also left selection footprints in breed genomes.Results Using the Chicken 50K_CobbCons SNP chip,we genotyped four divergently selected breeds:two aboriginal,cold tolerant Ushanka and Orloff Mille Fleur,one egg-type Russian White subjected to artificial selection for cold tolerance,and one meat-type White Cornish.Signals of selective sweeps were determined in the studied breeds using three methods:(1)assessment of runs of homozygosity islands,(2)F_(ST) based population differential analysis,and(3)haplotype differentiation analysis.Genomic regions of true selection signatures were identified by two or more methods or in two or more breeds.In these regions,we detected 540 prioritized candidate genes supplemented them with those that occurred in one breed using one statistic and were suggested in other studies.Amongst them,SOX5,ME3,ZNF536,WWP1,RIPK2,OSGIN2,DECR1,TPO,PPARGC1A,BDNF,MSTN,and beta-keratin genes can be especially mentioned as candidates for cold adaptation.Epigenetic factors may be involved in regulating some of these important genes(e.g.,TPO and BDNF).Conclusion Based on a genome-wide scan,our findings can help dissect the genetic architecture underlying various phenotypic traits in chicken breeds.These include genes representing the sine qua non for adaptation to harsh environments.Cold tolerance in acclimated chicken breeds may be developed following one of few specific gene expression mechanisms or more than one overlapping response known in cold-exposed individuals,and this warrants further investigation.展开更多
In April of 2006, a base population of the noble scallop Chlamys nobilis was established by collecting parental breeders from the stocks in Wushi, Zhanjiang. In December of 2006, 200 individuals were randomly sampled ...In April of 2006, a base population of the noble scallop Chlamys nobilis was established by collecting parental breeders from the stocks in Wushi, Zhanjiang. In December of 2006, 200 individuals were randomly sampled from the base population and subjected for correlation and path coefficient analysis. It was found that there were statistically significant phenotypic correlations among the traits （P 〈 0.01）. Total weight was significantly and positively correlated with the shell length （r = 0.934 3）, shell height （r = 0.895 9）, shell width （r = 0.899 1 ）, muscle weight （r = 0.882 0） and shell weight （r = 0.937 9）, respectively. Shell length, shell width, muscle weight, shell height and shell weight had positive and direct effects on the total weight, with values of 0.397 1, 0.321 9, 0.172 1, 0.089 6 and 0.066 9, respectively. Shell length, shell width and muscle weight had higher direct effects on the total weight than shell height and shell weight. A combined evaluation of correlation, direct effects and indirect effects showed that direct selection for shell length, shell width, muscle weight, shell height and shell weight would be effective to improving the total weight. It was concluded that these traits could be regarded as the selection criteria in breeding programs of the species.展开更多
[Objective] This study was conducted to utilize and estimate Erianthus arundinaceum resources and to develop their elite traits. [Method] Phenotypic traits and genetic diversity were evaluated based on 5 quantitative ...[Objective] This study was conducted to utilize and estimate Erianthus arundinaceum resources and to develop their elite traits. [Method] Phenotypic traits and genetic diversity were evaluated based on 5 quantitative traits and 21 qualitative traits of 162 accessions of Erianthus arundinaceum collected from nine provinces in China （74 in Yunnan, 15 in Fujian, 19 in Guizhou, 18 in Hainan, 14 in Sichuan, 10 in Jiangxi, 4 in Guangdong, 4 in Guangxi and 4 in Zhejiang）. [Result] The Shannon-Wiener indices of qualitative traits among the E. arundinaceum populations from different provinces were generally low. The accessions from Fujian exhibited the highest genetic diversity index （0.762 4）, while those from Guangxi showed the lowest one （0.294 2）. There were great genetic variances in quantitative traits, with mean variation coefficients ranging from 14.95% to 32.15%. The accessions from Yunnan showed the highest variation coefficient （32.15%） and those from Guangxi showed the lowest one （14.95%）. Brix exhibited extremely significant nega- tive correlation with altitude and plant height showed extremely significant negative correlation with latitude. Coefficients of genetic divergence indicated that a high proportion of total genetic variation was retained within the populations from different regions, and the high gene flow showed that there were active genetic exchanges among these populations, suggesting no significant genetic divergence among these populations. According to genetic distance and UPGMA, there was a certain correlation between genetic distance and different sampling regions of E. arundinaceum. [Conclusion] The results provide theoretical references for resource collection , het- erosis application and development of excellent genes of sugarcane germplasm.展开更多
Germplasm resources are an important basis for genetic breeding and analysis of complex traits,and research on genetic diversity is conducive to the exploration and creation of new types of germplasm.In this study,the...Germplasm resources are an important basis for genetic breeding and analysis of complex traits,and research on genetic diversity is conducive to the exploration and creation of new types of germplasm.In this study,the distribution frequency,coefficient of variation,Shannon-Wiener index,and variance and cluster analyses were used to analyze the diversity and trait differences of 39 fruit phenotypic traits from 570 pear accessions,which included 456 pear accessions from 11 species and 114 interspecific hybrid cultivars that had been stored in the National Germplasm Repository of Apple and Pear(Xingcheng,China).The comprehensive evaluation indices were screened by correlation,principal component and regression analyses.A total of 132 variant types were detected in 28 categorical traits of pear germplasm fruit,which indicate a rich diversity.The diversity indices in decreasing order were:fruit shape(1.949),attitude of calyx(1.908),flesh texture type(1.700),persistency of calyx(1.681),russet location(1.658),relief of area around eye basin(1.644),flavor(1.610)and ground color(1.592).The coefficient of variation of titratable acidity in the 11 numerical traits of pear germplasm fruit was as high as 128.43%,which could more effectively reflect the differences between pear accessions.The phenotypic differentiation coefficient V_(st)(66.4%)among the five cultivated pear species,including Pyrus bretschneideri(White Pear),P.pyrifolia(Sand Pear),P.ussuriensis(Ussurian Pear),P.sinkiangensis(Xinjiang Pear),and P.communis(European Pear),was higher than the within population phenotypic differentiation coefficient V_(st)(33.6%).The variation among populations was the main source of variation in pear fruit traits.A hierarchical cluster analysis divided the 389 accessions of six cultivated pear species,including P.pashia(Himalayan Pear),into six categories.There were certain characteristics within the populations,and the differences between populations were not completely clustered by region.For example,Sand Pear cultivars from Japan and the Korean Peninsula clustered together with those from China.Most of the White Pear cultivars clustered with the Sand Pear,and a few clustered with the Ussurian Pear cultivars.The Ussurian Pear and European Pear cultivars clustered separately.The Xinjiang Pear and Himalayan Pear did not cluster together,and neither did the cultivars.Seventeen traits,three describing fruit weight and edible rate(fruit diameter,fruit length and fruit core size),five describing outer quality and morphological characteristics(over color,amount of russeting,dot obviousness,fruit shape,and stalk length),and nine describing inner quality(flesh color,juiciness of flesh,aroma,flavor,flesh texture,flesh texture type,soluble solid contents,titratable acidity,and eating quality)were selected from the 39 traits by principal component and stepwise regression analyses.These 17 traits could reflect 99.3%of the total variation and can be used as a comprehensive evaluation index for pear germplasm resources.展开更多
Diversity of 60 conventional japonica rice accessions with good eating quality at home and abroad was analyzed using SSR molecular markers, agronomic traits and taste characteristics. A total of 290 alleles were detec...Diversity of 60 conventional japonica rice accessions with good eating quality at home and abroad was analyzed using SSR molecular markers, agronomic traits and taste characteristics. A total of 290 alleles were detected in the 60 accessions at 72 SSR loci with the high similarity coefficients varying between 0.600 and 0.924. The loci on chromosome 5 showed the greatest value in average allele number. Additionally, most of the SSR loci could detect 3 to 4 alleles. An UPGMA dendrogram based on the cluster analysis of the genetic similarity coefficients showed that the grouping trend of part of the rice accessions was geographic-related and most of the rice accessions in Jiangsu Province, China were clustered together. Furthermore, many domestic accessions from south and north origins in China were close to the foreign japonica rice varieties, as proved by their pedigree origin from the foreign high-quality sources. For taste characteristics, part of the accessions with excellent taste were clearly clustered into one category though they came from different geographical regions, which indicates that taste characteristics of some varieties were mainly genetically determined. In addition, the agronomic traits of japonica rice with good taste might be closely related with their geographical origins, but the relationship between superior taste characteristics and agronomic traits should be further clarified.展开更多
In order to reveal the genetic diversity and variation sources of leaf phenotypic traits in walnut,the coefficient of variation,Shannon-weaver index,phenotypic differentiation coefficient,and the correlation of 9 leaf...In order to reveal the genetic diversity and variation sources of leaf phenotypic traits in walnut,the coefficient of variation,Shannon-weaver index,phenotypic differentiation coefficient,and the correlation of 9 leaf phenotypic traits for 251 walnut germplasm resources from two walnut populations were analyzed.The results showed that the averages of the variation coefficients and Shannon-weaver indexes of the leaf phenotype traits were 17.45%and 1.86 respectively.The F values of most inter-population traits and all intra-population traits were highly significant,and the F values of inter-population leaf shape index,leaflet number,length and leaf length were very large.The averages of inter-population and intra-population differentiation coefficients were 9.15%and 90.85%respectively.The leaf size,leaf thickness,and leaflet number were highly correlated with trunk perimeters.According to the results of principal component analyses,the 9 traits can be simplified into four principal components,which represent leaf size,petiole,leaflet number and leaf shape,respectively.There were extensive variations and rich genetic diversities in leaf phenotypic traits of walnut,and the intra-population variation was the leading source of phenotypic trait variation.Leaf shape index,leaflet number,internode length and leaf length can be used for population classification.The size and thickness of leaves and the number of leaflets will affect the accumulation of nutrients in walnut tree,and then affect its trunk perimeter.展开更多
To explore the relation of maize grain texture and phenotypic traits with grain thin-layer drying rate,we observed the ultra-structure of maize grain,and tested three traits about the maize grain texture and four phen...To explore the relation of maize grain texture and phenotypic traits with grain thin-layer drying rate,we observed the ultra-structure of maize grain,and tested three traits about the maize grain texture and four phenotypic traits.The vitreous part percentage was different（P〈0.05） among different maize inbred lines.There was a significant relationship between the drying rate with grain texture and phenotypic traits.Main factors that influenced the drying rate were different during different drying stages.New results observed that empirical constants（k and N） in drying equation were different for seed of the 30 inbred lines of maize.The k of simplified diffusion equation and N of page equation were significantly influenced by both grain texture and phenotypic traits.These results could be used as guideline parameters for drying maize seeds having different grain characteristics during different drying stages.展开更多
Phenotypic plasticity and/or pollinatormediated selection may be responsible for the changes in floral traits of plants when they are forced to live in new conditions. Although the two events could be independent, we ...Phenotypic plasticity and/or pollinatormediated selection may be responsible for the changes in floral traits of plants when they are forced to live in new conditions. Although the two events could be independent, we hypothesized that phenotypic plasticity in floral traits might help to coordinate plant-pollinator interactions and enhance plant reproductive success in changing habitats. To test this hypothesis, we investigated floral traits and pollination on three natural populations of a lousewort(Pedicularis siphonantha) ranging at different elevations, as well as two downward transplanted populations in Shangeri-La County and Deqin County, northwest Yunnan, China. The results indicated that floral traits, i.e. phenology, longevity,display size, corolla tube length and pollen production differed significantly among populations. Moreover,or the two transplanted populations, floral traits diverged from their original populations, but converged to their host populations. Although the phenotypic plasticity in floral traits might be a rapid response to abiotic factor such as warmer environment, the changes in floral traits were found to be well adapted to pollination environment of the host population. Compared with plants of their original habitats in higher elevation, the transplanted individuals advanced flowering time, shortened flower longevity, reduced floral display size and pollen production, received higher visiting frequency and yielded more seeds. These findings suggested that phenotypic plasticity of floral traits might help plants adjust their resource allocation strategy between preand post-pollination stages in response to harsh or temperate conditions, which might correspondingly meet a pollinator-poor or hyphen rich environment.This would be beneficial for the widely-distributed species to adapt to various environmental changes.展开更多
Sweet potato leaf tips have high nutritional value,and exploring the differences in the metabolic profiles of leaf tips among different sweet potato varieties can provide information to improve their qualities.In this...Sweet potato leaf tips have high nutritional value,and exploring the differences in the metabolic profiles of leaf tips among different sweet potato varieties can provide information to improve their qualities.In this study,a UPLC-Q-Exactive Orbitrap/MS-based untargeted metabolomics method was used to evaluate the metabolites in leaf tips of 32 sweet potato varieties.Three varieties with distinct overall metabolic profiles(A01,A02,and A03),two varieties with distinct profiles of phenolic acids(A20 and A18),and three varieties with distinct profiles of flavonoids(A05,A12,and A16)were identified.In addition,a total of 163 and 29 differentially expressed metabolites correlated with the color and leaf shape of sweet potato leaf tips,respectively,were identified through morphological characterization.Group comparison analysis of the phenotypic traits and a metabolite-phenotypic trait correlation analysis indicated that the color differences of sweet potato leaf tips were markedly associated with flavonoids.Also,the level of polyphenols was correlated with the leaf shape of sweet potato leaf tips,with lobed leaf types having higher levels of polyphenols than the entire leaf types.The findings on the metabolic profiles and differentially expressed metabolites associated with the morphology of sweet potato leaf tips can provide useful information for breeding sweet potato varieties with higher nutritional value.展开更多
To analyze the degree and pattern of phenotypic variation in leaves of Tetracentron sinense Oliv from the perspective of genetic and environmental adaptation and thus contribute to effective evidence-based conservatio...To analyze the degree and pattern of phenotypic variation in leaves of Tetracentron sinense Oliv from the perspective of genetic and environmental adaptation and thus contribute to effective evidence-based conservation and management strategies for germplasm resources,we measured 17 morphological and epidermal micromorphological leaf traits from 24 natural populations of T.sinense.Nested analysis of variance,multiple comparison,principal component analysis(PCA),cluster analysis,and correlation analysis were used to explore phenotypic leaf variation among and within populations and potential correlations with geographic and environmental factors.There were significant differences in 17 leaf phenotypic traits among and within populations.The mean phenotypic differentiation coefficient of the 17 traits was 56.34%,and the variation among populations(36.4%)was greater than that within populations(27.2%).The coefficient of variation(CV)of each trait ranged from 4.6 to 23.8%,and the mean was 11.8%.Phenotypic variation of leaves was related to environmental factors such as average annual sunshine hours,average July temperature,and average annual rainfall.The variation changed along gradients of longitude,latitude,and altitude.The PCA clustered the 24 natural populations into four groups.Our study suggests that phenotypic variation in T.sinense occurred primarily among populations,with moderate levels of phenotypic differentiation among populations and low levels of phenotypic variation within populations.The plant’s poor adaptability to the environment is likely an important contributor to its endangerment.Accordingly,conservation strategies are proposed to protect and manage the natural populations of T.sinense.展开更多
The contribution of spike photosynthesis to grain yield(GY)has been overlooked in the accurate spectral prediction of yield.Thus,it’s essential to construct and estimate a yield-related phenotypic trait considering s...The contribution of spike photosynthesis to grain yield(GY)has been overlooked in the accurate spectral prediction of yield.Thus,it’s essential to construct and estimate a yield-related phenotypic trait considering spike photosynthesis.Based on field and spectral reflectance data from 19 wheat cultivars under two nitrogen fertilization conditions in two years,our objectives were to(i)construct a yield-related phenotypic trait(spike–leaf composite indicator,SLI)accounting for the contribution of the spike to photosynthesis,(ii)develop a novel spectral index(enhanced triangle vegetation index,ETVI3)sensitive to SLI,and(iii)establish and evaluate SLI estimation models by integrating spectral indices and machine learning algorithms.The results showed that SLI was sensitive to nitrogen fertilizer and wheat cultivar variation as well as a better predictor of yield than the leaf area index.ETVI3 maintained a strong correlation with SLI throughout the growth stage,whereas the correlations of other spectral indices with SLI were poor after spike emergence.Integrating spectral indices and machine learning algorithms improved the estimation accuracy of SLI,with the most accurate estimates of SLI showing coefficient of determination,root mean square error(RMSE),and relative RMSE values of 0.71,0.047,and 26.93%,respectively.These results provide new insights into the role of fruiting organs for the accurate spectral prediction of GY.This high-throughput SLI estimation approach can be applied for wheat yield prediction at whole growth stages and may be assisted with agronomical practices and variety selection.展开更多
The genetic diversity analysis was done on 11 phenotypic traits of 35 camellia germplasm materials. The results showed that there were varying degrees of variation in 11 traits concerning the flowers and leaves select...The genetic diversity analysis was done on 11 phenotypic traits of 35 camellia germplasm materials. The results showed that there were varying degrees of variation in 11 traits concerning the flowers and leaves selected in this study,and petal number had the largest coefficient of variation,followed by ovary height,and leaf length had the smallest coefficient of variation. F test results showed that the differences in 11 phenotypic traits reached a significant level. Through the trait correlation analysis,it was found that there was a positive or negative significant correlation between the 11 phenotypic traits. Principal component analysis results showed that the cumulative contribution rate of the first three principal components was 71. 185%,the eigenvector which reflected flower pattern was largest,and flower pattern had a great impact on classification of camellia variety. Based on the genetic differences in traits between varieties,the 35 test materials were divided into three categories: Group I was characterized by large flower pattern; Group II was characterized by large leaf pattern; Group Ⅲ was characterized by many petals. Flower diameter and flower height were important standards for classification of camellia variety.展开更多
Dogs represent such a rich potential resource to further understand diseases and genetic traits.Comparing the genomes of three species of canine,human,and rat in terms of genome analysis,it is found that dogs are high...Dogs represent such a rich potential resource to further understand diseases and genetic traits.Comparing the genomes of three species of canine,human,and rat in terms of genome analysis,it is found that dogs are highly conservative with humans and rats.The special population structure of dogs makes it a good model for studying the diversity of morphology and behavior,the genetic basis of mammalian evolution,and dis-eases.This article gives a brief review of recent advances in domestic dog origin and evolution,genomic structure,genetic variation in dog pheno-typic characteristics,and gene mapping.These research results are expected to provide a better theoretical basis for canine genetic breeding re-search and provide new ideas and methods for the prevention,diagnosis and treatment of human diseases.展开更多
The wild hawthorn species, Crataegus songorica K. Koch., is an important wild germplasm resource in Xinjiang, China that has been endangered in recent years. The genetic diversity of C. songorica K. Koch. germplasm in...The wild hawthorn species, Crataegus songorica K. Koch., is an important wild germplasm resource in Xinjiang, China that has been endangered in recent years. The genetic diversity of C. songorica K. Koch. germplasm in five populations from Daxigou, Xinjiang, China were evaluated based on phenotypic traits and ISSR molecular markers to provide basic infor- mation on resource protection, rational utilization and genetic improvement. The F-value for the phenotypic differentiation coefficient of the 33 traits measured ranged from 0.266 to 15.128, and mean value was 13.85%. The variation among populations was found to be lower than that within population. A total of 303 loci were detected within the five populations by 12 primers. Within 298,polymorphic loci, the polymorphism was 98.35%, showing a high genetic diversity in C. songorica K. Koch. The gene diversity within population, total population genetic diversity, genetic differentiation coefficient and gene flow were 0.2779, 0.3235, 0.1408, and 3.0511, respectively. Our results showed that C. songorica K. Koch. from Xinjiang has a high level of genetic diversity at both the phenotypic and molecular levels. Significant genetic differentiation existed within population and the differentiation trend showed a regional association. And in this study, in situ and ex situ conser- vation approaches were raised for wild hawthorn protection utilization.展开更多
Cacao(Theobroma cacao L.)is an important commodity tree crop which produces the cocoa bean,a major source of income for most West African countries and many smallholder farmers.Declining yield of cacao is a major limi...Cacao(Theobroma cacao L.)is an important commodity tree crop which produces the cocoa bean,a major source of income for most West African countries and many smallholder farmers.Declining yield of cacao is a major limitation to cocoa production in Nigeria.This study aimed at determining the correlations of the phenotypic traits that were related in the yield of the cacao genotypes.Nine cacao hybrids produced from some high-yielding parents in the research farm of Cocoa Research Institute of Nigeria,Ibadan,Nigeria were evaluated from 2012 through 2017 in Owena(7°11’N,5°1’E),Ondo state,Nigeria.Character Correlations and Path Coefficient Analysis were used in the description of the performance of the genotypes.The study concluded that significant genotypic and phenotypic correlations existed among many of the pairs of the fruit and bean characters with one another and with pod index,suggesting a complex contribution of these characters either positively or negatively to growth and yield in cacao,and that fruit and bean traits are determinants of yield in cacao.展开更多
We performed a genome-wide scan to detect selection signatures that showed evidence of positive selection in the domestication process by re-sequencing the whole genomes of Landrace and Yorkshire pigs.Fifteen annotate...We performed a genome-wide scan to detect selection signatures that showed evidence of positive selection in the domestication process by re-sequencing the whole genomes of Landrace and Yorkshire pigs.Fifteen annotated elements with 13 associated genes were identified using the Z-transformed FST(Z(FST))method,and 208 annotated elements with 140 associated genes were identified using the Z-transformed heterozygosity(ZHp)method.The functional analysis and the results of previous studies showed that most of the candidate genes were associated with basic metabolism,disease resistance,cellular processes,and biochemical signals,and several were related to body morphology and organs.They included PPP3CA,which plays an essential role in the transduction of intracellular Ca2+-mediated signals,and WWTR1,which plays a pivotal role in organ size control and tumor suppression.These results suggest that genes associated with body morphology were subject to selection pressure during domestication,whereas genes involved in basic metabolism and disease resistance were subject to selection during artificial breeding.Our findings provide new insights into the potential genetic variation of phenotypic diversity in different pig breeds and will help to better understand the selection effects of modern breeding in Landrace and Yorkshire pigs.展开更多
This study was conducted to analyze the phenotypic and genotypic similarity or diversity of rice （Oryza sativa L.） landraces in household and hypothermic genebank conservations in Hunan Province and identify the gen...This study was conducted to analyze the phenotypic and genotypic similarity or diversity of rice （Oryza sativa L.） landraces in household and hypothermic genebank conservations in Hunan Province and identify the genetic distance between the rice landraces with the same or similar names. A total of 92 accessions of rice landraces were divided into seven groups according to their local names, but the morphological traits showed large variations even within the same group as well as between household and genebank conservations. The SSR marker analysis showed that, in all the groups except Group E, the allelic variations within each subgroup of the household conservation were less than those of the genebank conservation, indicating the household-conserved rice landraces’ many-generation purifcation from natural and artifcial selections in the process of their cultivation year after year; and the similarity coeffcient among the household rice landraces was the highest except for Groups C and E. Thus, the study suggested that the same-name or similar-name rice resources retained by farmers would be valuable for collection and evaluation.展开更多
With the growing population and the reducing arable land, breeding has been considered as an effective way to solve the food crisis.As an important part in breeding, high-throughput phenotyping can accelerate the bree...With the growing population and the reducing arable land, breeding has been considered as an effective way to solve the food crisis.As an important part in breeding, high-throughput phenotyping can accelerate the breeding process effectively. Light detection and ranging(LiDAR) is an active remote sensing technology that is capable of acquiring three-dimensional(3 D) data accurately,and has a great potential in crop phenotyping. Given that crop phenotyping based on LiDAR technology is not common in China,we developed a high-throughput crop phenotyping platform, named Crop 3 D, which integrated LiDAR sensor, high-resolution camera, thermal camera and hyperspectral imager. Compared with traditional crop phenotyping techniques, Crop 3 D can acquire multi-source phenotypic data in the whole crop growing period and extract plant height, plant width, leaf length, leaf width, leaf area, leaf inclination angle and other parameters for plant biology and genomics analysis. In this paper, we described the designs,functions and testing results of the Crop 3 D platform, and briefly discussed the potential applications and future development of the platform in phenotyping. We concluded that platforms integrating LiDAR and traditional remote sensing techniques might be the future trend of crop high-throughput phenotyping.展开更多
Aims The two coexisting Leymus chinensis ecotypes exhibit remarkable divergences in adaptive strategies under drought and salinity in semi-humid meadows and semi-arid steppes.In order to detect the major genetic and e...Aims The two coexisting Leymus chinensis ecotypes exhibit remarkable divergences in adaptive strategies under drought and salinity in semi-humid meadows and semi-arid steppes.In order to detect the major genetic and environmental factors dominating the intraspecific phenotype variations and ecotype formation,the questions regarding the two distinct phenotypic forms(ecotypes)in L.chin-ensis were addressed:(i)did environments drive the L.chinensis ecotype formation?(ii)was there a molecular basis for the morphological divergence between the two ecotypes?(iii)which driving force dominated the intraspecies divergence,divergent natural selection,genetic drift or stabilizing selection?Methods We applied a series experiments on demographical,morphological and physiological traits of two Leymus chinensis ecotypes with gray green(GG)and yellow green(YG)leaf color in nine wild sites along a longitudinal gradient from 114°to 124°E in northeast China.The environmental data including mean annual precipitation,mean annual temperature,elevation and soil properties were collected.We compared the differences of morphological,physiological and genetic differentiations between the two ecotypes.Important FindingsThe GG type exhibited stronger fitness than YG type from the population densities,morphological traits(e.g.shoot height,leaf area,leaf and seed weights et al.),leaf mass per area(LMA)and physiological traits[relative water content(RWC),proline,soluble sugar contents].Most of above phenotypes(e.g.total shoot densities,spike length et al.)were significantly correlated with mean annual precipitation,mean annual temperature and soil water content(SWC),rarely a correlated with soil pH and soil nutrient.Transplanted populations showed convergence trend by their leaf chlorophyll contents and osmotic adjustments(proline and soluble sugar contents)in the greenhouse,but still exhibited their divergences between two ecotypes in the outdoor transplantation,suggesting that whether L.chinensis ecotype differentiated could be largely affected by the environmental conditions.Furthermore,by the comparison result of quantitative genetic variation(Q_(ST))values from phenotypes with theoretical neutral genetic differentiation(F_(ST)),differentiation in phenotypic traits greatly surpassed neutral predictions,implying that directional natural selection played a crucial role in L.chinen-sis ecotype differentiation.In addition,microsatellite analysis from Neighbor-joining tree and Bayesian assignment generated into two groups according to ecotypes,indicating molecular genetic differentiation also propelled the two ecotypes divergence.We conclude that L.chinensis population variations were driven by combing divergent natural selection(precipitation,temperature and SWCs)along the large-scale gradient and significantly intrinsic genetic differentiation.展开更多
基金supported by the Russian Science Foundation within the Project No.21-66-00007support of the Russian Ministry of Science and Higher Education。
文摘Background The genomes of worldwide poultry breeds divergently selected for performance and other phenotypic traits may also be affected by,and formed due to,past and current admixture events.Adaptation to diverse environments,including acclimation to harsh climatic conditions,has also left selection footprints in breed genomes.Results Using the Chicken 50K_CobbCons SNP chip,we genotyped four divergently selected breeds:two aboriginal,cold tolerant Ushanka and Orloff Mille Fleur,one egg-type Russian White subjected to artificial selection for cold tolerance,and one meat-type White Cornish.Signals of selective sweeps were determined in the studied breeds using three methods:(1)assessment of runs of homozygosity islands,(2)F_(ST) based population differential analysis,and(3)haplotype differentiation analysis.Genomic regions of true selection signatures were identified by two or more methods or in two or more breeds.In these regions,we detected 540 prioritized candidate genes supplemented them with those that occurred in one breed using one statistic and were suggested in other studies.Amongst them,SOX5,ME3,ZNF536,WWP1,RIPK2,OSGIN2,DECR1,TPO,PPARGC1A,BDNF,MSTN,and beta-keratin genes can be especially mentioned as candidates for cold adaptation.Epigenetic factors may be involved in regulating some of these important genes(e.g.,TPO and BDNF).Conclusion Based on a genome-wide scan,our findings can help dissect the genetic architecture underlying various phenotypic traits in chicken breeds.These include genes representing the sine qua non for adaptation to harsh environments.Cold tolerance in acclimated chicken breeds may be developed following one of few specific gene expression mechanisms or more than one overlapping response known in cold-exposed individuals,and this warrants further investigation.
文摘In April of 2006, a base population of the noble scallop Chlamys nobilis was established by collecting parental breeders from the stocks in Wushi, Zhanjiang. In December of 2006, 200 individuals were randomly sampled from the base population and subjected for correlation and path coefficient analysis. It was found that there were statistically significant phenotypic correlations among the traits （P 〈 0.01）. Total weight was significantly and positively correlated with the shell length （r = 0.934 3）, shell height （r = 0.895 9）, shell width （r = 0.899 1 ）, muscle weight （r = 0.882 0） and shell weight （r = 0.937 9）, respectively. Shell length, shell width, muscle weight, shell height and shell weight had positive and direct effects on the total weight, with values of 0.397 1, 0.321 9, 0.172 1, 0.089 6 and 0.066 9, respectively. Shell length, shell width and muscle weight had higher direct effects on the total weight than shell height and shell weight. A combined evaluation of correlation, direct effects and indirect effects showed that direct selection for shell length, shell width, muscle weight, shell height and shell weight would be effective to improving the total weight. It was concluded that these traits could be regarded as the selection criteria in breeding programs of the species.
基金Supported by Crop Germplasm Protection Project of Ministry of Agriculture of the People’s Republic of China(2014NWB017)Fund for National Infrastructure of Sugarcane Germplasm Resources(2012-044)Fund for Sugarcane Industry Technical System Construction of Kaiyuan Field Station(CARS-20-6-13)~~
文摘[Objective] This study was conducted to utilize and estimate Erianthus arundinaceum resources and to develop their elite traits. [Method] Phenotypic traits and genetic diversity were evaluated based on 5 quantitative traits and 21 qualitative traits of 162 accessions of Erianthus arundinaceum collected from nine provinces in China （74 in Yunnan, 15 in Fujian, 19 in Guizhou, 18 in Hainan, 14 in Sichuan, 10 in Jiangxi, 4 in Guangdong, 4 in Guangxi and 4 in Zhejiang）. [Result] The Shannon-Wiener indices of qualitative traits among the E. arundinaceum populations from different provinces were generally low. The accessions from Fujian exhibited the highest genetic diversity index （0.762 4）, while those from Guangxi showed the lowest one （0.294 2）. There were great genetic variances in quantitative traits, with mean variation coefficients ranging from 14.95% to 32.15%. The accessions from Yunnan showed the highest variation coefficient （32.15%） and those from Guangxi showed the lowest one （14.95%）. Brix exhibited extremely significant nega- tive correlation with altitude and plant height showed extremely significant negative correlation with latitude. Coefficients of genetic divergence indicated that a high proportion of total genetic variation was retained within the populations from different regions, and the high gene flow showed that there were active genetic exchanges among these populations, suggesting no significant genetic divergence among these populations. According to genetic distance and UPGMA, there was a certain correlation between genetic distance and different sampling regions of E. arundinaceum. [Conclusion] The results provide theoretical references for resource collection , het- erosis application and development of excellent genes of sugarcane germplasm.
基金supported by the China Agriculture Research System of MOF and MARA(CARS-29-01)the Science and Technology Innovation Program of Chinese Academy of Agricultural Sciences(CAAS-ASTIP2016-RIP-01)。
文摘Germplasm resources are an important basis for genetic breeding and analysis of complex traits,and research on genetic diversity is conducive to the exploration and creation of new types of germplasm.In this study,the distribution frequency,coefficient of variation,Shannon-Wiener index,and variance and cluster analyses were used to analyze the diversity and trait differences of 39 fruit phenotypic traits from 570 pear accessions,which included 456 pear accessions from 11 species and 114 interspecific hybrid cultivars that had been stored in the National Germplasm Repository of Apple and Pear(Xingcheng,China).The comprehensive evaluation indices were screened by correlation,principal component and regression analyses.A total of 132 variant types were detected in 28 categorical traits of pear germplasm fruit,which indicate a rich diversity.The diversity indices in decreasing order were:fruit shape(1.949),attitude of calyx(1.908),flesh texture type(1.700),persistency of calyx(1.681),russet location(1.658),relief of area around eye basin(1.644),flavor(1.610)and ground color(1.592).The coefficient of variation of titratable acidity in the 11 numerical traits of pear germplasm fruit was as high as 128.43%,which could more effectively reflect the differences between pear accessions.The phenotypic differentiation coefficient V_(st)(66.4%)among the five cultivated pear species,including Pyrus bretschneideri(White Pear),P.pyrifolia(Sand Pear),P.ussuriensis(Ussurian Pear),P.sinkiangensis(Xinjiang Pear),and P.communis(European Pear),was higher than the within population phenotypic differentiation coefficient V_(st)(33.6%).The variation among populations was the main source of variation in pear fruit traits.A hierarchical cluster analysis divided the 389 accessions of six cultivated pear species,including P.pashia(Himalayan Pear),into six categories.There were certain characteristics within the populations,and the differences between populations were not completely clustered by region.For example,Sand Pear cultivars from Japan and the Korean Peninsula clustered together with those from China.Most of the White Pear cultivars clustered with the Sand Pear,and a few clustered with the Ussurian Pear cultivars.The Ussurian Pear and European Pear cultivars clustered separately.The Xinjiang Pear and Himalayan Pear did not cluster together,and neither did the cultivars.Seventeen traits,three describing fruit weight and edible rate(fruit diameter,fruit length and fruit core size),five describing outer quality and morphological characteristics(over color,amount of russeting,dot obviousness,fruit shape,and stalk length),and nine describing inner quality(flesh color,juiciness of flesh,aroma,flavor,flesh texture,flesh texture type,soluble solid contents,titratable acidity,and eating quality)were selected from the 39 traits by principal component and stepwise regression analyses.These 17 traits could reflect 99.3%of the total variation and can be used as a comprehensive evaluation index for pear germplasm resources.
基金supported by the National Science and Technology Support Program(Grant No.2006BAD01A01-5)the Key Program of the Development of Variety of Genetically Modified Organisms(Grant No.2008ZX08001-006)+2 种基金Special Program for Rice Scientific Research,Ministry of Agriculture,China(Grant No.nyhyzx 07-001-006)the Key Support Program of Jiangsu Science and Technology(Grant No.BE2008354)Jiangsu Self-innovation Fund for Agricultural Science and Technology,China(GrantNo.CX[08]603)
文摘Diversity of 60 conventional japonica rice accessions with good eating quality at home and abroad was analyzed using SSR molecular markers, agronomic traits and taste characteristics. A total of 290 alleles were detected in the 60 accessions at 72 SSR loci with the high similarity coefficients varying between 0.600 and 0.924. The loci on chromosome 5 showed the greatest value in average allele number. Additionally, most of the SSR loci could detect 3 to 4 alleles. An UPGMA dendrogram based on the cluster analysis of the genetic similarity coefficients showed that the grouping trend of part of the rice accessions was geographic-related and most of the rice accessions in Jiangsu Province, China were clustered together. Furthermore, many domestic accessions from south and north origins in China were close to the foreign japonica rice varieties, as proved by their pedigree origin from the foreign high-quality sources. For taste characteristics, part of the accessions with excellent taste were clearly clustered into one category though they came from different geographical regions, which indicates that taste characteristics of some varieties were mainly genetically determined. In addition, the agronomic traits of japonica rice with good taste might be closely related with their geographical origins, but the relationship between superior taste characteristics and agronomic traits should be further clarified.
文摘In order to reveal the genetic diversity and variation sources of leaf phenotypic traits in walnut,the coefficient of variation,Shannon-weaver index,phenotypic differentiation coefficient,and the correlation of 9 leaf phenotypic traits for 251 walnut germplasm resources from two walnut populations were analyzed.The results showed that the averages of the variation coefficients and Shannon-weaver indexes of the leaf phenotype traits were 17.45%and 1.86 respectively.The F values of most inter-population traits and all intra-population traits were highly significant,and the F values of inter-population leaf shape index,leaflet number,length and leaf length were very large.The averages of inter-population and intra-population differentiation coefficients were 9.15%and 90.85%respectively.The leaf size,leaf thickness,and leaflet number were highly correlated with trunk perimeters.According to the results of principal component analyses,the 9 traits can be simplified into four principal components,which represent leaf size,petiole,leaflet number and leaf shape,respectively.There were extensive variations and rich genetic diversities in leaf phenotypic traits of walnut,and the intra-population variation was the leading source of phenotypic trait variation.Leaf shape index,leaflet number,internode length and leaf length can be used for population classification.The size and thickness of leaves and the number of leaflets will affect the accumulation of nutrients in walnut tree,and then affect its trunk perimeter.
基金funded by the Shandong Modern Agricultural Technology & Industry System,Chinathe Seed Production Technology and Development of Key Equipment and Demonstration(201203052) from Special Funds for Agro-scientific Research in the Public Interest,China+1 种基金the Maize Germplasm Innovation of Shandong Seed Industry Project,Chinathe Shandong Province Modern Agriculture Industrial Production Technology System,China (SDAIT-01-022-02)
文摘To explore the relation of maize grain texture and phenotypic traits with grain thin-layer drying rate,we observed the ultra-structure of maize grain,and tested three traits about the maize grain texture and four phenotypic traits.The vitreous part percentage was different（P〈0.05） among different maize inbred lines.There was a significant relationship between the drying rate with grain texture and phenotypic traits.Main factors that influenced the drying rate were different during different drying stages.New results observed that empirical constants（k and N） in drying equation were different for seed of the 30 inbred lines of maize.The k of simplified diffusion equation and N of page equation were significantly influenced by both grain texture and phenotypic traits.These results could be used as guideline parameters for drying maize seeds having different grain characteristics during different drying stages.
基金supported by the National Natural Science Foundation of China (Grant No. 31370263 and 31770255)
文摘Phenotypic plasticity and/or pollinatormediated selection may be responsible for the changes in floral traits of plants when they are forced to live in new conditions. Although the two events could be independent, we hypothesized that phenotypic plasticity in floral traits might help to coordinate plant-pollinator interactions and enhance plant reproductive success in changing habitats. To test this hypothesis, we investigated floral traits and pollination on three natural populations of a lousewort(Pedicularis siphonantha) ranging at different elevations, as well as two downward transplanted populations in Shangeri-La County and Deqin County, northwest Yunnan, China. The results indicated that floral traits, i.e. phenology, longevity,display size, corolla tube length and pollen production differed significantly among populations. Moreover,or the two transplanted populations, floral traits diverged from their original populations, but converged to their host populations. Although the phenotypic plasticity in floral traits might be a rapid response to abiotic factor such as warmer environment, the changes in floral traits were found to be well adapted to pollination environment of the host population. Compared with plants of their original habitats in higher elevation, the transplanted individuals advanced flowering time, shortened flower longevity, reduced floral display size and pollen production, received higher visiting frequency and yielded more seeds. These findings suggested that phenotypic plasticity of floral traits might help plants adjust their resource allocation strategy between preand post-pollination stages in response to harsh or temperate conditions, which might correspondingly meet a pollinator-poor or hyphen rich environment.This would be beneficial for the widely-distributed species to adapt to various environmental changes.
基金This work was supported by grants from the construction and operation of the Food Nutrition and Health Research Center of Guangdong Academy of Agricultural Sciences,China(XTXM 202205)the earmarked fund for CARS-10Sweetpotato,and the Guangdong Modern Agro-industry Technology Research System,China(2022KJ111).
文摘Sweet potato leaf tips have high nutritional value,and exploring the differences in the metabolic profiles of leaf tips among different sweet potato varieties can provide information to improve their qualities.In this study,a UPLC-Q-Exactive Orbitrap/MS-based untargeted metabolomics method was used to evaluate the metabolites in leaf tips of 32 sweet potato varieties.Three varieties with distinct overall metabolic profiles(A01,A02,and A03),two varieties with distinct profiles of phenolic acids(A20 and A18),and three varieties with distinct profiles of flavonoids(A05,A12,and A16)were identified.In addition,a total of 163 and 29 differentially expressed metabolites correlated with the color and leaf shape of sweet potato leaf tips,respectively,were identified through morphological characterization.Group comparison analysis of the phenotypic traits and a metabolite-phenotypic trait correlation analysis indicated that the color differences of sweet potato leaf tips were markedly associated with flavonoids.Also,the level of polyphenols was correlated with the leaf shape of sweet potato leaf tips,with lobed leaf types having higher levels of polyphenols than the entire leaf types.The findings on the metabolic profiles and differentially expressed metabolites associated with the morphology of sweet potato leaf tips can provide useful information for breeding sweet potato varieties with higher nutritional value.
基金funded by the Sichuan Science and Technology Program,Sichuan Province,China(No.2017JY0164)the Special Fund for the Fourth General Survey of Chinese Medicine Resources in China(No.2018PC001)+1 种基金Meritocracy Research Funds of China West Normal University(No.17YC325)the Fundamental Research Funds of China West Normal University(No.18B026).
文摘To analyze the degree and pattern of phenotypic variation in leaves of Tetracentron sinense Oliv from the perspective of genetic and environmental adaptation and thus contribute to effective evidence-based conservation and management strategies for germplasm resources,we measured 17 morphological and epidermal micromorphological leaf traits from 24 natural populations of T.sinense.Nested analysis of variance,multiple comparison,principal component analysis(PCA),cluster analysis,and correlation analysis were used to explore phenotypic leaf variation among and within populations and potential correlations with geographic and environmental factors.There were significant differences in 17 leaf phenotypic traits among and within populations.The mean phenotypic differentiation coefficient of the 17 traits was 56.34%,and the variation among populations(36.4%)was greater than that within populations(27.2%).The coefficient of variation(CV)of each trait ranged from 4.6 to 23.8%,and the mean was 11.8%.Phenotypic variation of leaves was related to environmental factors such as average annual sunshine hours,average July temperature,and average annual rainfall.The variation changed along gradients of longitude,latitude,and altitude.The PCA clustered the 24 natural populations into four groups.Our study suggests that phenotypic variation in T.sinense occurred primarily among populations,with moderate levels of phenotypic differentiation among populations and low levels of phenotypic variation within populations.The plant’s poor adaptability to the environment is likely an important contributor to its endangerment.Accordingly,conservation strategies are proposed to protect and manage the natural populations of T.sinense.
基金supported by the National Natural Science Foundation of China(32371990,31971784)the Earmarked Fund for Jiangsu Agricultural Industry Technology System(JATS(2022)168,JATS(2022)468)+1 种基金the Jiangsu Provincial Cooperative Promotion Plan of Major Agricultural Technologies(2021-ZYXT-01-1)the Postgraduate Research&Practice Innovation Program of Jiangsu Province(KYCX23_0783)。
文摘The contribution of spike photosynthesis to grain yield(GY)has been overlooked in the accurate spectral prediction of yield.Thus,it’s essential to construct and estimate a yield-related phenotypic trait considering spike photosynthesis.Based on field and spectral reflectance data from 19 wheat cultivars under two nitrogen fertilization conditions in two years,our objectives were to(i)construct a yield-related phenotypic trait(spike–leaf composite indicator,SLI)accounting for the contribution of the spike to photosynthesis,(ii)develop a novel spectral index(enhanced triangle vegetation index,ETVI3)sensitive to SLI,and(iii)establish and evaluate SLI estimation models by integrating spectral indices and machine learning algorithms.The results showed that SLI was sensitive to nitrogen fertilizer and wheat cultivar variation as well as a better predictor of yield than the leaf area index.ETVI3 maintained a strong correlation with SLI throughout the growth stage,whereas the correlations of other spectral indices with SLI were poor after spike emergence.Integrating spectral indices and machine learning algorithms improved the estimation accuracy of SLI,with the most accurate estimates of SLI showing coefficient of determination,root mean square error(RMSE),and relative RMSE values of 0.71,0.047,and 26.93%,respectively.These results provide new insights into the role of fruiting organs for the accurate spectral prediction of GY.This high-throughput SLI estimation approach can be applied for wheat yield prediction at whole growth stages and may be assisted with agronomical practices and variety selection.
文摘The genetic diversity analysis was done on 11 phenotypic traits of 35 camellia germplasm materials. The results showed that there were varying degrees of variation in 11 traits concerning the flowers and leaves selected in this study,and petal number had the largest coefficient of variation,followed by ovary height,and leaf length had the smallest coefficient of variation. F test results showed that the differences in 11 phenotypic traits reached a significant level. Through the trait correlation analysis,it was found that there was a positive or negative significant correlation between the 11 phenotypic traits. Principal component analysis results showed that the cumulative contribution rate of the first three principal components was 71. 185%,the eigenvector which reflected flower pattern was largest,and flower pattern had a great impact on classification of camellia variety. Based on the genetic differences in traits between varieties,the 35 test materials were divided into three categories: Group I was characterized by large flower pattern; Group II was characterized by large leaf pattern; Group Ⅲ was characterized by many petals. Flower diameter and flower height were important standards for classification of camellia variety.
基金Supported by Special Project of Basic Work of Strengthening Police by Science and Technology of the Ministry of Public Security (2018GABJC27,2019GABJC29)Basic Research Program of Science and Technology Project from Yunnan Department of Science and Technology (Youth Project)(2019FD025)
文摘Dogs represent such a rich potential resource to further understand diseases and genetic traits.Comparing the genomes of three species of canine,human,and rat in terms of genome analysis,it is found that dogs are highly conservative with humans and rats.The special population structure of dogs makes it a good model for studying the diversity of morphology and behavior,the genetic basis of mammalian evolution,and dis-eases.This article gives a brief review of recent advances in domestic dog origin and evolution,genomic structure,genetic variation in dog pheno-typic characteristics,and gene mapping.These research results are expected to provide a better theoretical basis for canine genetic breeding re-search and provide new ideas and methods for the prevention,diagnosis and treatment of human diseases.
基金supported by the Special Research Projects of National Forestry Industry of Public Benefit,China(201304701-1)the Key Discipline of Horticultural of Xinjiang Uygur Autonomous Region of China(2016-10758-3)the Key Laboratory of Characteristics of Fruit Trees Center of Xinjiang Agricultural University,China
文摘The wild hawthorn species, Crataegus songorica K. Koch., is an important wild germplasm resource in Xinjiang, China that has been endangered in recent years. The genetic diversity of C. songorica K. Koch. germplasm in five populations from Daxigou, Xinjiang, China were evaluated based on phenotypic traits and ISSR molecular markers to provide basic infor- mation on resource protection, rational utilization and genetic improvement. The F-value for the phenotypic differentiation coefficient of the 33 traits measured ranged from 0.266 to 15.128, and mean value was 13.85%. The variation among populations was found to be lower than that within population. A total of 303 loci were detected within the five populations by 12 primers. Within 298,polymorphic loci, the polymorphism was 98.35%, showing a high genetic diversity in C. songorica K. Koch. The gene diversity within population, total population genetic diversity, genetic differentiation coefficient and gene flow were 0.2779, 0.3235, 0.1408, and 3.0511, respectively. Our results showed that C. songorica K. Koch. from Xinjiang has a high level of genetic diversity at both the phenotypic and molecular levels. Significant genetic differentiation existed within population and the differentiation trend showed a regional association. And in this study, in situ and ex situ conser- vation approaches were raised for wild hawthorn protection utilization.
文摘Cacao(Theobroma cacao L.)is an important commodity tree crop which produces the cocoa bean,a major source of income for most West African countries and many smallholder farmers.Declining yield of cacao is a major limitation to cocoa production in Nigeria.This study aimed at determining the correlations of the phenotypic traits that were related in the yield of the cacao genotypes.Nine cacao hybrids produced from some high-yielding parents in the research farm of Cocoa Research Institute of Nigeria,Ibadan,Nigeria were evaluated from 2012 through 2017 in Owena(7°11’N,5°1’E),Ondo state,Nigeria.Character Correlations and Path Coefficient Analysis were used in the description of the performance of the genotypes.The study concluded that significant genotypic and phenotypic correlations existed among many of the pairs of the fruit and bean characters with one another and with pod index,suggesting a complex contribution of these characters either positively or negatively to growth and yield in cacao,and that fruit and bean traits are determinants of yield in cacao.
基金supported by the grants from the Sichuan Science and Technology Program,China(2020YFN0024)the earmarked fund for the China Agriculture Research System(CARS-35-01A)+2 种基金the National Key R&D Program of China(2018YFD0501204)the National Natural Science Foundation of China(C170102)the Sichuan Innovation Team of Pig,China(sccxtd-2021-08)。
文摘We performed a genome-wide scan to detect selection signatures that showed evidence of positive selection in the domestication process by re-sequencing the whole genomes of Landrace and Yorkshire pigs.Fifteen annotated elements with 13 associated genes were identified using the Z-transformed FST(Z(FST))method,and 208 annotated elements with 140 associated genes were identified using the Z-transformed heterozygosity(ZHp)method.The functional analysis and the results of previous studies showed that most of the candidate genes were associated with basic metabolism,disease resistance,cellular processes,and biochemical signals,and several were related to body morphology and organs.They included PPP3CA,which plays an essential role in the transduction of intracellular Ca2+-mediated signals,and WWTR1,which plays a pivotal role in organ size control and tumor suppression.These results suggest that genes associated with body morphology were subject to selection pressure during domestication,whereas genes involved in basic metabolism and disease resistance were subject to selection during artificial breeding.Our findings provide new insights into the potential genetic variation of phenotypic diversity in different pig breeds and will help to better understand the selection effects of modern breeding in Landrace and Yorkshire pigs.
基金Supported by Protection Fund for Species Resources of Ministry of Agriculture(1120162130135252036)the Third Chinese Crop Germplasm Resources Census and CollectionSpecial Fund for National Modern Agro-Industrial Technology System Construction(nycytx-001)~~
文摘This study was conducted to analyze the phenotypic and genotypic similarity or diversity of rice （Oryza sativa L.） landraces in household and hypothermic genebank conservations in Hunan Province and identify the genetic distance between the rice landraces with the same or similar names. A total of 92 accessions of rice landraces were divided into seven groups according to their local names, but the morphological traits showed large variations even within the same group as well as between household and genebank conservations. The SSR marker analysis showed that, in all the groups except Group E, the allelic variations within each subgroup of the household conservation were less than those of the genebank conservation, indicating the household-conserved rice landraces’ many-generation purifcation from natural and artifcial selections in the process of their cultivation year after year; and the similarity coeffcient among the household rice landraces was the highest except for Groups C and E. Thus, the study suggested that the same-name or similar-name rice resources retained by farmers would be valuable for collection and evaluation.
基金supported by the Strategic Program of Molecular Module-Based Designer Breeding Systems(XDA08040107)the Instrument Developing Project of the Chinese Academy of Sciences(2014129)
文摘With the growing population and the reducing arable land, breeding has been considered as an effective way to solve the food crisis.As an important part in breeding, high-throughput phenotyping can accelerate the breeding process effectively. Light detection and ranging(LiDAR) is an active remote sensing technology that is capable of acquiring three-dimensional(3 D) data accurately,and has a great potential in crop phenotyping. Given that crop phenotyping based on LiDAR technology is not common in China,we developed a high-throughput crop phenotyping platform, named Crop 3 D, which integrated LiDAR sensor, high-resolution camera, thermal camera and hyperspectral imager. Compared with traditional crop phenotyping techniques, Crop 3 D can acquire multi-source phenotypic data in the whole crop growing period and extract plant height, plant width, leaf length, leaf width, leaf area, leaf inclination angle and other parameters for plant biology and genomics analysis. In this paper, we described the designs,functions and testing results of the Crop 3 D platform, and briefly discussed the potential applications and future development of the platform in phenotyping. We concluded that platforms integrating LiDAR and traditional remote sensing techniques might be the future trend of crop high-throughput phenotyping.
基金National Scientific Foundation of China(31470404 and 31070228).
文摘Aims The two coexisting Leymus chinensis ecotypes exhibit remarkable divergences in adaptive strategies under drought and salinity in semi-humid meadows and semi-arid steppes.In order to detect the major genetic and environmental factors dominating the intraspecific phenotype variations and ecotype formation,the questions regarding the two distinct phenotypic forms(ecotypes)in L.chin-ensis were addressed:(i)did environments drive the L.chinensis ecotype formation?(ii)was there a molecular basis for the morphological divergence between the two ecotypes?(iii)which driving force dominated the intraspecies divergence,divergent natural selection,genetic drift or stabilizing selection?Methods We applied a series experiments on demographical,morphological and physiological traits of two Leymus chinensis ecotypes with gray green(GG)and yellow green(YG)leaf color in nine wild sites along a longitudinal gradient from 114°to 124°E in northeast China.The environmental data including mean annual precipitation,mean annual temperature,elevation and soil properties were collected.We compared the differences of morphological,physiological and genetic differentiations between the two ecotypes.Important FindingsThe GG type exhibited stronger fitness than YG type from the population densities,morphological traits(e.g.shoot height,leaf area,leaf and seed weights et al.),leaf mass per area(LMA)and physiological traits[relative water content(RWC),proline,soluble sugar contents].Most of above phenotypes(e.g.total shoot densities,spike length et al.)were significantly correlated with mean annual precipitation,mean annual temperature and soil water content(SWC),rarely a correlated with soil pH and soil nutrient.Transplanted populations showed convergence trend by their leaf chlorophyll contents and osmotic adjustments(proline and soluble sugar contents)in the greenhouse,but still exhibited their divergences between two ecotypes in the outdoor transplantation,suggesting that whether L.chinensis ecotype differentiated could be largely affected by the environmental conditions.Furthermore,by the comparison result of quantitative genetic variation(Q_(ST))values from phenotypes with theoretical neutral genetic differentiation(F_(ST)),differentiation in phenotypic traits greatly surpassed neutral predictions,implying that directional natural selection played a crucial role in L.chinen-sis ecotype differentiation.In addition,microsatellite analysis from Neighbor-joining tree and Bayesian assignment generated into two groups according to ecotypes,indicating molecular genetic differentiation also propelled the two ecotypes divergence.We conclude that L.chinensis population variations were driven by combing divergent natural selection(precipitation,temperature and SWCs)along the large-scale gradient and significantly intrinsic genetic differentiation.
