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A test of genetic divergence of a bird existing in the Sichuan Basin and its surrounding mountain ranges

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Avian Research 2023年第4期14卷 553-564页

作者： Lu Wang Fangqing Liu Lan Zhao Yaling Xu Tianyu Zhang Longying Wen Key Laboratory of Sichuan Institute for Protecting Endangered Birds in the Southwest Mountains College of Life SciencesLeshan Normal UniversityLeshan614004China Chengdu Institute of Biology Chinese Academy of SciencesChengdu610299China College of Life Sciences Wuhan UniversityWuhan430072China

Island ecosystems,serving as natural laboratories,facilitate geographical isolation,ecological specialization,and species *** Sichuan Basin,surrounded by mountain ranges,represents a typical continental island due to its marked environmental spatial *** heterogeneity may contribute to geographical isolation and habitat heterogeneity,resulting in genetic divergence within ***,we used the White-browed Laughingthrush(Garrulax sannio)as a model specimen to investigate the genetic divergence in the Sichuan Basin and its surrounding mountain ranges,given its presence in various habitats within and beyond this *** a RAD-seq dataset of 140 *** individuals from 17 distinct ecological zones in the Sichuan Basin and its surrounding mountain ranges,we conducted PCA,population structure analysis,phylogenetic tree construction,and gene flow analysis to comprehensively analyze *** ***,in conjunction with geographical and ecological data,we performed isolation by distance,isolation by environment,PCA,and latent factor mixed model analysis to identify factors influencing the genetic divergence among these *** *** summary,the 17 *** groups were categorized into high-elevation,medium-elevation,and lowelevation *** divergence in *** may be attributed to both geographical distance and key ecological factors,particularly elevation and key climatic ***,the high-elevation group exhibited a greater number of SNPs and selected genes associated with the key ecological factors compared to the lowelevation *** ADCY9 gene and several associated key pathways were identified as crucial elements driving ecological adaptation(elevation and key climatic variables)in the high-elevation ***,climate changes during the glacial cycles may have facilitated gene flow among these groups residing in the Sichuan Basin and its surrounding mountain *** finding

关键词： genetic divergence Restriction site-associated DNA sequencing (RAD-seq) Sichuan Basin White-browed Laughingthrush

Extensive genetic divergence among Diptychus maculatus populations in northwest China

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Chinese Journal of Oceanology and Limnology 2015年第3期33卷 577-584页

作者：孟玮杨天燕海萨马燕武蔡林钢马徐发高天翔郭焱 Xinjiang Fishery Research Institute Institute of Evolution & Marine Biodiversity Ocean University of China Fisheries College of Huazhong Agricultural University

D. maculates is a kind of specialized Schizothoracinae fish has been locally listed as a protected animal in Xinjiang Province, China. Ill River located in north of Tianshan Mountain and Tarim River located in north of Qinghai-Tibetan Plateau were two main distribution areas of this fish. To investigate the genetic diversity and genetic structure ofD. maculates, four populations from Tarim River system and two populations from Ili River system were collected in this study. A 570-bp sequence of the control region was obtained for 105 specimens. Twenty-four haplotypes were detected from six populations, only Kunes River population and Kashi River population shared haplotypes with each other. For all the populations examined, the haplotype diversity （h） was 0.904 8±0.012 6, nucleotide diversity （n） was 0.027 9±0.013 9, and the average number of pairwise nucleotide differences （k） was 15.878 3±7.139 1. The analysis of molecular variance （AMOVA） showed that 86.31% of the total genetic variation was apportioned among populations, and the variation within sampled populations was 13.69%. genetic differences among sampled populations were highly significant. Fst statistical test indicated that all populations were significantly divergent from each other （P〈0.01）. The largest Fst value was between Yurungkash River population and Muzat River population, while the smallest fst value was between Kunes River population and Kashi River population. NJ phylogenetic tree of D-loop haplotypes revealed two main clades. The neutrality test and mismatch distribution analysis suggested that the fish had went through a recent population expansion. The uplift of Tianshan Mountain and movement of Qinghai-Tibetan Plateau might contribute to the wide genetic divergence of D. maculates in northwest China.

关键词： D. maculates Tarim River system Ili River system genetic divergence genetic structure

genetic divergence Studies in Local Rice （Oryza Sativa L.） Germplasm Adapted to Temperate Climatic Conditions of Kashmir

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Genetic Divergence Studies in Local Rice （Oryza Sativa L.）...

Evaluation of genetic divergence in Various Potato Genotypes Grown in Bangladesh through Different Traits Assessment

第二届植物分子育种国际会议

作者： G.A.Parray S.A.Wani G.N.Bhat Sher-e-Kashmir University of Agricultural Sciences ＆ Technology of Kashmir Division of Plant Breeding ＆ genetics Shalimar Campus 191 121J＆KIndia Sher-e-Kashmir University of Agricultural Sciences ＆ Technology of Kashmir Division of Plant Breeding ＆ genetics Shalimar Campus 191 121J＆KIndia Sher-e-Kashmir University of Agricultural Sciences ＆ Technology of Kashmir Division of Plant Breeding ＆ genetics Shalimar Campus 191 121J＆KIndia

＜正＞The nature and magnitude of genetic divergence was observed in 66 local rice germplasm and 3 checks of Kashmir using Mahalanobis D2 statistic. The cultivars were grouped into 18 clusters. Inter cluster distances

关键词： Cluster analysis D2 statistics genetic divergence Rice germplasm

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American Journal of Plant Sciences 2023年第11期14卷 1235-1247页

作者： Md. Mukhtar Hossain Md. Abdul Kaium Md. Al Amin Tabaraka Binte Ali Nusrat Jahan Md Nasim Uddin Department of Crop Science and Technology Faculty of Agriculture Rajshahi University Rajshahi Bangladesh

The goal of the study was to quantify the genetic diversity of different potato varieties. Five groups were named to classify the 25 genres of potatoes as: Cluster I (Lalpakri, Diamond), Cluster II (Hagrai, Green Mountain, G.M.O., Elvera), Cluster III (Atlantic, Shepody, Raja, Fundy, Multa, Granulla, Shibilati, Japanese Red), Cluster IV (Atlas, Brondy, Yucon Gold, Monona, Petrones, Cheroki), and Cluster V (Calwhite, Prelude, Allblue, Russet, Burbank, TPS-67). The highest and lowest genotypes are found in Clusters III and I, respectively. The two groups’ maximum inter-cluster distance (the cluster’s distance between them) demonstrates the enormous diversity between Clusters II & III. Cluster III had the greatest intra-cluster distance (distance within a set), whereas Cluster V had the smallest. In most cases, the distance between gaps was more significant than the distance within the holes, showing greater genetic diversity between different groups’ genotypes. The highest, second highest, and third highest eigenvalues, accompanying the positive canonical values for Vectors I and II of three characteristics: average tuber weight in each plant, the tubers number in each plant, and the eyes number in each tuber, showed the most outstanding contribution to the complete difference between genotypes. Of the nine features, the smaller leaves number in each plant, the shorter plant height, the more minor genotypes, the fewer eyes per tube generated from Cluster I, the maximum height of the plants, the high-quality tubers in each plant, the tubers number in each plant, the fresh weight in each plant, and the leaf number in each plant from Cluster II could be chosen in the role of parents in this program for hybridization. Given the size of the genetic distance, the various characteristics that contribute to the overall difference, and the average population size, Hagrai, Green Mountain, O.M.G., Elvera Cluster II and Cluster I, Lalpakri, and Diamond genotypes can be regarded a

关键词： genetic divergence Potato Genotypes Different Traits Cluster Analysis Principal Component Analysis

Assessment of Different Traits to Evaluate genetic divergence in Some Wheat (<i>Triticum aestivum</i>L.) Genotypes under Late Sowing Condition

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American Journal of Plant Sciences 2021年第5期12卷 734-747页

作者： Md. Mukhtar Hossain Md. Abul Kalam Azad Touria El-Jaoual Eaton Md. Nur-Alam Siddquie Department of Crop Science and Technology Faculty of Agriculture Rajshahi University Rajshahi Bangladesh Cooperative Extension and Research Lincoln University of Missouri Jefferson City USA Senior Scientific Officer Bangladesh Agricultural Research Institute Shyampur Rajshahi

The research work was undertaken to identify the extent of genetic diversity in different parameters of wheat related to heat tolerance mechanism. Performances of currently available 25 spring wheat genotypes were studied at the Regional Wheat Research Institute, Shyampur, Rajshahi during the winter season of 2016/2017. All these genotypes (25) were grouped into five clusters on the basis of non-hierarchical clustering parameters viz. cluster I (G2, G5, G6, G16, G20), II (G4, G7, G9, G11, G12, G17), III (G10, G24), IV (G1, G13, G19, G21) and V (G3, G8, G14, G15, G18, G22, G23, G25). These groups were arranged into five (5) pairs of clusters viz. cluster I and III;II and III;II and V;III and IV;IV and V considering their similar potentiality of different traits. Results revealed that the maximum number of genotypes (8) was found in cluster V while cluster III comprised minimum genotypes (2). The inter-cluster distance was higher than intra-cluster distances. The highest and second highest eigenvalues belonged to spike/m2 (25.23%) and spikelets/spike (20.18%) respectively, along with positive canonical values in both the vectors 1 and 2 for these two traits identified them as major traits by exposing their highest potential toward genetic divergence. Cluster III produced the highest spike/m2 (388.8), grain/spike (48.1), plant height (89.5 cm), SPAD (54.2), yield (2799 kg/ha) and biomass (7758.1 Kg/ha) with lowest heading days (64.7 days), maturity days (98.7 days), canopy temperature at vegetative stage (21.7°C) and canopy temperature at grain filling stage (22.4°C). In contrast, cl

关键词： genetic divergence Heat Tolerance Assessment of Different Traits Cluster Analysis Principal Component Analysis Selection of Genotype

genetic variability and divergence studies in pod and seed traits of Pongamia pinnata(L.) Pierre., accessions in Bay Islands

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Journal of Forestry Research 2014年第2期25卷 351-358页

作者： I. Jaisankar M. Sankaran D.R. Singh V. Damodaran Central Agricultural Research Institute Indian Council of Agricultural Research

In this study, we assessed the variability in pod, seed traits and oil content of 24 accessions of Pongamia pinnata collected from different parts of the Andaman and Nicobar Islands, India. The experiment was conducted at the Central Agricultural Research Institute, Port Blair during 2010 to 2011. The variability studies for pod and seed traits revealed that, the accession CPT-6 collected from New Wandoor in South Andaman recorded the maximum values for eight traits viz. pod length （75.51 mm）, pod width （34.62 mm）, pod thickness （17.55 mm）, 100 pod weight （770.33 g）, seed width （21.23 mm）, 100 seed weight （377.00 g）, oil percentage （43.92%） and germination percentage （94.7%）. However, the maximum seed length （26.46 mm） was recorded from CPT 2 and the maximum pod-seed ratio was obtained from CPT 13 and CPT 4 （2.50 and 2.44 respectively）. The phenotypic and genotypic coefficients of variations were also close to each other for all traits, but the 100 pod and seed weight exhibited higher phenotypic and genotypic coefficient of variation than the other traits. Estimates of broad sense heritability ranged from 0.30 （for seed length） to 0.95 （pod length） and genetic ad- vance as percent of the mean ranged between 11.66% and 57.40% with seed length giving the lowest value and 100 pod weight giving the high- est value. Both the phenotypic and genotypic correlation between pod length, pod width, pod thickness, 100 pod weight, seed width and 100 seed weight and between pod thickness, 100 pod weight, seed width, 100 seed weight and germination percentage were found to be strong. On the basis of non hierarchical Euclidian cluster analysis, 24 accessions were grouped into six clusters. The maximum numbers of seven accessions were included in cluster VI. The maximum intra cluster distance （10.238）shown by cluster VI and the maximum inter cluster distance （17.021） between V and HI followed by III and II （15.942）. Among the six clus- ters formed the cluster III recorded maximum oil

关键词： Pongamia pinnata correlation heritabi!ity genetic gain genetic divergence oil percentage

genetic Differentiation Among Populations of Octopus minor Based on Simple Sequence Repeats Mined from Transcriptome Data

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Journal of Ocean University of China 2022年第5期21卷 1265-1272页

作者： NAN Ze XU Ran HOU Chunqiang ZHENG Xiaodong Institute of Evolution and Marine Biodiversity Ocean University of ChinaQingdao 266003China Key Laboratory of Mariculture Ocean University of ChinaQingdao 266003China Tianjin Fisheries Research Institute Tianjin 300457China

Octopus minor(Sasaki 1920)is an important commercial cephalopod species in *** species has declined sharply in recent ***,genetic studies of *** are imperative to exploit and manage the wild *** this study,46192 microsatellite loci were discovered in 70174 unigenes from the transcriptomic *** all of the simple sequence repeat(SSR)unit categories,di-nucleotide and tri-nucleotide SSRs accounted for 45.26%and 14.49%,respectively.A total of 108 SSRs were tested,of which 21 were neutral and *** SSRs were selected for genetics analyses of the *** populations in the Bohai Sea,the Yellow Sea,and the southwest coast of the Taiwan Strait *** pairwise F_(st) values were detected among the *** UPGMA tree based on genetic distances suggested that the sampling locations could be arranged in three *** markers are evidence that the populations in this region may be structured,with samples from Penghu differing remarkably from those in northern *** present study characterized genetic markers for population assessment,management,and conservation of ***.

关键词： Octopus minor transcriptome simple sequence repeats genetic divergence

Genealogy and phylogeography of Cyprinid fish Labeo rohita （Hamilton, 1822） inferred from ATPase 6 and 8 mitochondrial DNA gene analysis

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Current Zoology 2014年第4期60卷 460-471页

作者： Rupesh K. LUHARIYA Kuldeep K. LAL Rajeev K. SINGH Vindhya MOHINDRA Arti GUPTA Prachi MASIH Arvind K. DWIVEDI Rakhi DAS U. K. CHAUHAN J. K. JENA National Bureau ofFish genetic Resources (ICAR) Lucknow- 226 002 UP India School of Environmental Sciences APS University Rewa- 486 003 MP India

ATPase 6/8 gene （842 bp） of mitochondrial DNA was sequenced in Labeo rohita samples （n = 253） collected from nine rivers belonging to four river basins; Indus, Ganges, Brahmaputra and Mahanadi. Analysis revealed 44 haplotypes with high haplotype diversity （Hd） 0.694 and low nucleotide diversity （π） 0.001. The within population variation was larger （83.44%） than among population differences （16.56%）. The mean Fsv value （0.166; P 〈 0.05） for overall populations revealed moderate level of genetic structuring in the wild L. rohita populations. The haplotype network presented a single clade for wild L. rohita population, from different rivers. Negative values for Fu＇s index （Fs）, mismatch distribution analysis indicated period of expansion in L. rohita population. The time after recent expansion was estimated for each population, between 0.042 to 0.167 mya. The pattern of Isolation by Distance （IBD） was not significant （r = -0.113, P 〈 0.287）, when all the sampling locations were compared （Mantel test）, however, when an outlier （Indus, Brahmaputra and Mahanadi） was removed from the whole population set, a clear positive correlation between pairwise Fsv and geographic distance （Km） was seen. The analysis of data demonstrated that ATPase6/8 gene polymorphism is a potential marker to understand genetic population structure of wild L. rohita existing in different rivers. The study identified population substructure in wild L. rohita with common ancestral origin [Current Zoology 60 （4）： 460--471, 2014].

关键词： Labeo rohita ATPase6/8 mtDNA Polymorphism genetic divergence India

Identification of diverse genotypes with high oil content in Madhuca latifolia for further use in tree improvement

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Journal of Forestry Research 2015年第2期26卷 369-379页

作者： B.N.Divakara H.D.Upadhyaya Ananth Laxmi Rameshwar Das Institute of Forest Productivity Indian Council of Forestry Research and Education Institute of Wood Science and Technology Indian Council of Forestry Research and Education genetic Resources Global Theme on Crop ImprovementInternational Crops Research Institute for the Semi Arid mTropics Institute of Forest genetics and Tree Breeding

Madhuca latifolia *** known as Indian butter tree,is an open-pollinated *** in seed and oil yields depends on the progress in the desired characters in the base material and the genetic variability available in the collected *** evaluated 23 genotypes of *** to understand genetic variability,character association and divergence in seed traits and oil content for use in breeding *** was recorded in seed length（27.3–38.6 mm）,seed breadth（15.6–19.1 mm）,two dimensional（2D） surface area（328.3–495.4 mm2）,100 seed weight（216.8–285.3 g）,acid value（13.4–25.8 mg KOH/g）,iodine number（62.4–78.6） and oil content（37.8–51.0 %）.High estimates of genotypic coefficient of variation,broad senseheritability and genetic gain were observed for seed oil *** studies for seed traits revealed that genotype CPT-16 had the highest 100-seed weight（281.5 g） and oil content（51 %）.Highly significant genotypic and phenotypic correlations were ***100-seed weight was positively and significantly correlated with oil content at both phenotypic（r = 0.57） and genotypic（r = 0.60） *** analysis of the scores of the first three principle components（80.83 %） resulted in four clusters,consisting of 4,7,3 and 9 genotypes in the first,second,third and fourth clusters,*** 3was distinguished from others based on significantly higher means for most seed traits except seed breadth,acid value,iodine number and oil *** 1 appeared more divergent as it had significantly higher means for acid value and iodine number.A comparative assessment of means of the four clusters for 100-seed weight and oil content suggested that cluster 3 would be useful for higher 100-seed weight and oil *** these genotypes,CPT-3,CPT-6 and CPT-15 in cluster 3 can be used for direct selection and utilization in breeding programs.

关键词： Heritability genetic advance Association genetic divergence