scholarly journals A population genetics study of three native Mexican woody bamboo species of Guadua (Poaceae: Bambusoideae: Bambuseae: Guaduinae) using nuclear microsatellite markers

2021 ◽  
Vol 1 (1) ◽  
Author(s):  
Jessica Perez-Alquicira ◽  
Stephanie Aguilera-Lopez ◽  
Yessica Rico ◽  
Eduardo Ruiz-Sanchez
Keyword(s):  
Genetic Diversity ◽  
Genetic Structure ◽  
Geographic Distance ◽  
Genetic Distances ◽  
Maximum Temperature ◽  
Relative Contribution ◽  
Nuclear Microsatellite ◽  
Sporadic Flowering ◽  
Woody Bamboos ◽  
Gregarious Flowering

Background: Sporadic flowering contributes significantly to genetic diversity and connectivity among populations. Woody bamboos present sporadic or gregarious flowering patterns with long flowering cycles. In this study, we analyze the genetic diversity of three Guadua species distributed along the Gulf of Mexico slope that have different patterns of flowering. Questions: (1) Are the three Guadua species genetically differentiated? (2) Does the vulnerable species G. inermis have low levels of genetic diversity? (3) What is the relative contribution of geographic and environmental factors to the genetic structure of G. inermis? Species studied: Guadua inermis, G. amplexifolia and G. tuxtlensis Study site and dates: During 2014 and 2015, we collected samples of G. inermis in Puebla and southeastern Mexico, G. amplexifolia in Veracruz and Oaxaca, and G. tuxtlensis in southern Veracruz. Methods: We successfully amplified five of nine SSR markers, and genotyped a total of 155 samples. Results: The three Guadua species were genetically differentiated. For G. inermis, we found high levels of population genetic diversity, which are relatively higher than those of other monocot species. Genetic differentiation was high and three groups were detected: north, central and south. We found a significant association between genetic distances and the maximum temperature of the warmest month, but not with geographic distance. Conclusions: Our study is the first to analyze levels of genetic diversity in Mexican bamboos and confirms their taxonomic identity. G. inermis has a strong genetic structure, even when populations are geographically close.

Detection of genetic diversity in rough fescue (Festuca campestris Rydb) populations of southern Alberta and British Columbia, Canada, using RAPD markers

2008 ◽  
Vol 88 (2) ◽  
pp. 307-312
Author(s):  
Zhao Mengli ◽  
Han Bing ◽  
Walter D Willms
Keyword(s):  
Genetic Diversity ◽  
British Columbia ◽  
Genetic Distance ◽  
Random Amplified Polymorphic Dna ◽  
Geographic Distance ◽  
Genetic Distances ◽  
Gene Frequencies ◽  
Southern Alberta ◽  
Potential Adaptation ◽  
Rough Fescue

Mountain rough fescue (Festuca campestris Rydb.) is a tufted native grass in southern Alberta and British Columbia, Canada, and has attracted interest for use in reclamation. However, its seed is often available from only a few localized sources and may not be adapted for areas removed from the collection site. We conducted a study to determine the genetic variability among rough fescue populations to assess its potential adaptation. Thirty plants were collected from each of six populations and analyzed using Random Amplified Polymorphic DNA (RAPD). One population (Kamloops, BC) was separated by several mountain ranges from the five easterly Alberta populations.The Kamloops population was also separated from the Alberta populations by genetic distance in two clusters. Of the total genetic variation present in the data, 21% was found among populations while the remaining (79%) was found within populations. Nei’s genetic distances among populations were related to their geographical distances. Genetic differences among populations appeared to be caused primarily by differences in gene frequencies rather than rare genes. Also, genetic diversity appeared to increase from west to east suggesting that the more easterly populations had greater adaptation potential. We speculate that the more easterly populations are less likely to share genes since the prevailing winds are from the west. Germplasm from the more easterly populations may be used with suitable precautions within Alberta and possibly around Kamloops. Key words: Genetic distance, geographic distance, reclamation, potential adaptation

scholarly journals Spectrum of genetic diversity and networks of clonal organisms

2007 ◽  
Vol 4 (17) ◽  
pp. 1093-1102 ◽  
Author(s):  
Alejandro F Rozenfeld ◽  
Sophie Arnaud-Haond ◽  
Emilio Hernández-García ◽  
Víctor M Eguíluz ◽  
Manuel A Matías ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Genetics ◽  
Genetic Structure ◽  
Small World ◽  
Clonal Plants ◽  
Posidonia Oceanica ◽  
Genetic Distances ◽  
Wide Range ◽  
Clonal Organisms ◽  
Genetic Structure And Diversity

Clonal reproduction characterizes a wide range of species including clonal plants in terrestrial and aquatic ecosystems, and clonal microbes such as bacteria and parasitic protozoa, with a key role in human health and ecosystem processes. Clonal organisms present a particular challenge in population genetics because, in addition to the possible existence of replicates of the same genotype in a given sample, some of the hypotheses and concepts underlying classical population genetics models are irreconcilable with clonality. The genetic structure and diversity of clonal populations were examined using a combination of new tools to analyse microsatellite data in the marine angiosperm Posidonia oceanica . These tools were based on examination of the frequency distribution of the genetic distance among ramets, termed the spectrum of genetic diversity (GDS), and of networks built on the basis of pairwise genetic distances among genets. Clonal growth and outcrossing are apparently dominant processes, whereas selfing and somatic mutations appear to be marginal, and the contribution of immigration seems to play a small role in adding genetic diversity to populations. The properties and topology of networks based on genetic distances showed a ‘small-world’ topology, characterized by a high degree of connectivity among nodes, and a substantial amount of substructure, revealing organization in subfamilies of closely related individuals. The combination of GDS and network tools proposed here helped in dissecting the influence of various evolutionary processes in shaping the intra-population genetic structure of the clonal organism investigated; these therefore represent promising analytical tools in population genetics.

scholarly journals Influence of isolation by environment and landscape heterogeneity on genetic structure of wild rice Zizania latifolia along a latitudinal gradient

2020 ◽  
Author(s):  
Godfrey Kinyori Wagutu ◽  
Xiangrong Fan ◽  
Wenlong Fu ◽  
Wei Li ◽  
Yuanyuan Chen
Keyword(s):  
Genetic Diversity ◽  
Genetic Structure ◽  
Genetic Differentiation ◽  
Local Adaptation ◽  
Landscape Heterogeneity ◽  
Maximum Temperature ◽  
Zizania Latifolia ◽  
Precipitation Seasonality ◽  
Isolation By Environment

AbstractGlobal aquatic habitats are undergoing rapid degradation and fragmentation as a result of land-use change and climate change. Understanding the genetic variability and adaptive potential of aquatic plant species is thus important for conservation purposes. In this study, we investigated the role of environment, landscape heterogeneity and geographical distance in shaping the genetic structure of 28 natural populations of Zizania latifolia (Griseb.) Turcz. Ex Stapf in China based on 25 microsatellite markers. Genetic structure was investigated by analysis of molecular variance (AMOVA), estimation of FST, Bayesian clustering and Thermodynamic Integration (TI) methods. Isolation by environment (IBE), isolation by resistance (IBR) and isolation by distance (IBD) hypotheses were compared using a reciprocal causal model (RCM). Further, generalized linear models and spatially explicit mixed models, by using geographic, landscape and genetic variables, were developed to elucidate the role of environment in driving Z. latifolia genetic diversity. The genetic differentiation across all populations was high: FST = 0.579; Øpt = 0.578. RCM exclusively supported IBE in shaping genetic structuring, only partial support for IBR, but not for IBD. Maximum temperature of the warmest month and precipitation seasonality were the plausible parameters responsible for genetic diversity. After controlling for spatial effect and landscape complexity, precipitation seasonality was significantly associated with genetic diversity. Based on these findings, genetic structure of Z. latifolia across China seem to be as a result of local adaptation. Environmental gradient and topographical barriers, rather than geographical isolation, influence genetic differentiation of aquatic species across China resulting in instances of local adaptation.

Genetic diversity and gene flow patterns in two riverine plant species with contrasting life-history traits and distributions across a large inland floodplain

2020 ◽  
Vol 68 (5) ◽  
pp. 384
Author(s):  
William Higgisson ◽  
Dianne Gleeson ◽  
Linda Broadhurst ◽  
Fiona Dyer
Keyword(s):  
Genetic Diversity ◽  
Gene Flow ◽  
Genetic Structure ◽  
Water Resource ◽  
Isolation By Distance ◽  
Spatial Genetic Structure ◽  
Geographic Distance ◽  
Resource Development ◽  
Water Resource Development ◽  
Floodplain River

Gene flow is a key evolutionary driver of spatial genetic structure, reflecting demographic processes and dispersal mechanisms. Understanding how genetic structure is maintained across a landscape can assist in setting conservation objectives. In Australia, floodplains naturally experience highly variable flooding regimes that structure the vegetation communities. Flooding plays an important role, connecting communities on floodplains and enabling dispersal via hydrochory. Water resource development has changed the lateral-connectivity of floodplain-river systems. One possible consequence of these changes is reduced physical and subsequent genetic connections. This study aimed to identify and compare the population structure and dispersal patterns of tangled lignum (Duma florulenta) and river cooba (Acacia stenophylla) across a large inland floodplain using a landscape genetics approach. Both species are widespread throughout flood prone areas of arid and semiarid Australia. Tangled lignum occurs on floodplains while river cooba occurs along rivers. Leaves were collected from 144 tangled lignum plants across 10 sites and 84 river cooba plants across 6 sites, on the floodplain of the lower and mid Lachlan River, and the Murrumbidgee River, NSW. DNA was extracted and genotyped using DArTseq platforms (double digest RADseq). Genetic diversity was compared with floodplain-river connection frequency, and genetic distance (FST) was compared with river distance, geographic distance and floodplain-river connection frequency between sites. Genetic similarity increased with increasing floodplain-river connection frequency in tangled lignum but not in river cooba. In tangled lignum, sites that experience more frequent flooding had greater genetic diversity and were more genetically homogenous. There was also an isolation by distance effect where increasing geographic distance correlated with increasing genetic differentiation in tangled lignum, but not in river cooba. The distribution of river cooba along rivers facilitates regular dispersal of seeds via hydrochory regardless of river level, while the dispersal of seeds of tangled lignum between patches is dependent on flooding events. The genetic impact of water resource development may be greater for species which occur on floodplains compared with species along river channels.

Genetic structures of common ash (Fraxinus excelsior) populations in Germany at sites differing in water regimes

2008 ◽  
Vol 38 (5) ◽  
pp. 1199-1210 ◽  
Author(s):  
M. C. Dacasa Rüdinger ◽  
J. Glaeser ◽  
I. Hebel ◽  
A. Dounavi
Keyword(s):  
Genetic Diversity ◽  
Genetic Structure ◽  
Fraxinus Excelsior ◽  
Plant Metabolism ◽  
Enzyme Complex ◽  
Human Pressure ◽  
Selection Processes ◽  
Nuclear Microsatellite ◽  
Isozyme Analyses ◽  
Genetic Structures

The genetic structure of the alcohol dehydrogenase (ADH) enzyme complex was studied by means of isozyme analysis among several common ash ( Fraxinus excelsior L.) provenances. We analysed if specific alloforms of locus ADH-B are selected under flooding stress caused by oxygen deprivation, since ADH is a fundamental enzyme of the plant metabolism under anoxia. This selection, if given, could therefore result in different ash ecotypes. Furthermore, genetic structures in the same provenances resulting from the analysis of four nuclear microsatellite markers are also discussed and compared with those resulting from the isozyme analyses to differentiate between adaptation and demographical processes. We found the highest value of genetic diversity at one of the two examined floodplains but did not find significant correlations between genotypes structures and flooding. The observed allele distributions can be mainly attributed to high human pressure and important seed transport events. These are regarded as the main forces shaping the actual genotype distributions rather than selection processes acting on locus ADH-B.

Genetic structure analysis of domestic duck populations in eastern China

2008 ◽  
Vol 5 (3) ◽  
pp. 183-187
Author(s):  
Li Hui-Fang ◽  
Song Wei-Tao ◽  
Zhu Wen-Qi ◽  
Xu Wen-Juan ◽  
Tang Qing-Ping
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Genetic Structure ◽  
Eastern China ◽  
Genetic Distances ◽  
Domestic Duck ◽  
Average Heterozygosity ◽  
Rich Diversity ◽  
Breed Differences ◽  
The Rich

AbstractUsing microsatellite markers, the genetic structure of nine domestic duck (Anas platyrhynchos) populations in eastern China was analysed. The results showed that the heterozygosity was high in these populations, ranging from 0.5137 to 0.6055, with an average heterozygosity of 0.5523, reflecting the rich diversity. Considerable breed differentiation was observed and 25.65% of the total genetic variation came from breed differences; this low differentiation result affirmed that each breed has its own genetic diversity. The DA genetic distances suggested that greater differentiation existed between populations. The duck populations were clustered into four groups based on neighbour joining (NJ) clustering, and the clustering results showed relationships with duck breed distributions and economic utilization.

scholarly journals Fine-scale genetic structure of the overwintering Chilo suppressalis in the typical bivoltine areas of northern China

PLoS ONE ◽  
2020 ◽  
Vol 15 (12) ◽  
pp. e0243999
Author(s):  
Ke-Xin Zhu ◽  
Shan Jiang ◽  
Lei Han ◽  
Ming-Ming Wang ◽  
Xing-Ya Wang
Keyword(s):  
Genetic Diversity ◽  
Genetic Structure ◽  
Genetic Differentiation ◽  
Isolation By Distance ◽  
Genetic Relationships ◽  
Management Strategies ◽  
Geographic Distance ◽  
Northern China ◽  
Economic Losses ◽  
Chilo Suppressalis

The rice stem borer (RSB), Chilo suppressalis (Lepidoptera: Pyralidae), is an important agricultural pest that has caused serious economic losses in the major rice-producing areas of China. To effectively control this pest, we investigated the genetic diversity, genetic differentiation and genetic structure of 16 overwintering populations in the typical bivoltine areas of northern China based on 12 nuclear microsatellite loci. Moderate levels of genetic diversity and genetic differentiation among the studied populations were detected. Neighbour-joining dendrograms, Bayesian clustering and principal coordinate analysis (PCoA) consistently divided these populations into three genetic clades: western, eastern and northern/central. Isolation by distance (IBD) and spatial autocorrelation analyses demonstrated no correlation between genetic distance and geographic distance. Bottleneck analysis illustrated that RSB populations had not undergone severe bottleneck effects in these regions. Accordingly, our results provide new insights into the genetic relationships of overwintering RSB populations and thus contribute to developing effective management strategies for this pest.

Population genetic structure andWolbachiainfection in an endangered butterfly,Zizina emelina(Lepidoptera, Lycaenidae), in Japan

2014 ◽  
Vol 105 (2) ◽  
pp. 152-165 ◽  
Author(s):  
Y. Sakamoto ◽  
N. Hirai ◽  
T. Tanikawa ◽  
M. Yago ◽  
M. Ishii
Keyword(s):  
Genetic Diversity ◽  
Genetic Structure ◽  
Population Genetic ◽  
Nuclear Dna ◽  
Geographic Distance ◽  
Fixation Index ◽  
Migratory Activity ◽  
Dna Analyses ◽  
Mitochondrial Haplotypes ◽  
Male Killer

AbstractZizina emelina(de l'Orza) is listed on Japan's Red Data List as an endangered species because of loss of its principal food plant and habitat. We compared parts of the mitochondrial and nuclear genes of this species to investigate the level of genetic differentiation among the 14 extant populations. We also examined infection of the butterfly with the bacteriumWolbachiato clarify the bacterium's effects on the host population's genetic structure. Mitochondrial and nuclear DNA analyses revealed that haplotype composition differed significantly among most of the populations, and the fixation indexFSTwas positively correlated with geographic distance. In addition, we found three strains ofWolbachia, one of which was a male killer; these strains were prevalent in several populations. There was linkage between some host mitochondrial haplotypes and the threeWolbachiastrains, although no significant differences were found in a comparison of host mitochondrial genetic diversity with nuclear genetic diversity inWolbachia-infected or -uninfected populations. These genetic analyses andWolbachiainfection findings show thatZ. emelinahas little migratory activity and that little gene flow occurs among the current populations.

scholarly journals GENETIC AND MORPHOAGRONOMIC DIVERSITY OF Passiflora spp. BASED ON QUANTITATIVE MEASUREMENTS OF FLOWERS AND FRUITS

2017 ◽  
Vol 39 (1) ◽  
Author(s):  
JAMILE DA SILVA OLIVEIRA ◽  
FÁBIO GELAPE FALEIRO ◽  
NILTON TADEU VILELA JUNQUEIRA ◽  
MARCELO LIBINDO VIANA
Keyword(s):  
Genetic Diversity ◽  
Cluster Analysis ◽  
Genetic Distances ◽  
Morphological Descriptors ◽  
Relative Contribution ◽  
Quantitative Measurements ◽  
Diversity Studies ◽  
Generalized Distance

ABSTRACT The aim of this study was to characterize Passiflora spp. accessions and its genetic diversity based on quantitative morphological descriptors of flowers and fruits. The study was conducted at Embrapa Cerrados, Planaltina-DF. Fifteen Passiflora spp. accessions were characterized using 14 quantitative morphological descriptors. Genetic distances among accessions were estimated based on Mahalanobis’ generalized distance. Cluster analysis via dendrogram and graphic dispersion was analyzed. The relative contribution of characters for accession divergence was also calculated. The morphoagronomic characterization based on quantitative descriptors of flowers and fruits contributed to the differentiation of Passiflora spp. accessions, serving as an important tool for variability quantification. This information is useful to perform Passiflora spp. characterization and genetic diversity studies.

scholarly journals Genetic Divergence of Two Sitobion avenae Biotypes on Barley and Wheat in China

Insects ◽  
2020 ◽  
Vol 11 (2) ◽  
pp. 117
Author(s):  
Da Wang ◽  
Xiaoqin Shi ◽  
Deguang Liu ◽  
Yujing Yang ◽  
Zheming Shang
Keyword(s):  
Genetic Diversity ◽  
Genetic Structure ◽  
Genetic Differentiation ◽  
Host Plant ◽  
Genetic Divergence ◽  
Isolation By Distance ◽  
Critical Role ◽  
Geographic Distance ◽  
Sitobion Avenae ◽  
Insect Populations

Host plant affinity and geographic distance can play critical roles in the genetic divergence of insect herbivores and evolution of insect biotypes, but their relative importance in the divergence of insect populations is still poorly understood. We used microsatellite markers to test the effects of host plant species and geographic distance on divergence of two biotypes of the English grain aphid, Sitobion avenae (Fabricius). We found that clones of S. avenae from western provinces (i.e., Xinjiang, Gansu, Qinghai and Shaanxi) had significantly higher genetic diversity than those from eastern provinces (i.e., Anhui, Henan, Hubei, Zhejiang and Jiangsu), suggesting their differentiation between both areas. Based on genetic diversity and distance estimates, biotype 1 clones of eastern provinces showed high genetic divergence from those of western provinces in many cases. Western clones of S. avenae also showed higher genetic divergence among themselves than eastern clones. The Mantel test identified a significant isolation-by-distance (IBD) effect among different geographic populations of S. avenae, providing additional evidence for a critical role of geography in the genetic structure of both S. avenae biotypes. Genetic differentiation (i.e., FST) between the two biotypes was low in all provinces except Shaanxi. Surprisingly, in our analyses of molecular variance, non-significant genetic differentiation between both biotypes or between barley and wheat clones of S. avenae was identified, showing little contribution of host-plant associated differentiation to the divergence of both biotypes in this aphid. Thus, it is highly likely that the divergence of the two S. avenae biotypes involved more geographic isolation and selection of some form than host plant affinity. Our study can provide insights into understanding of genetic structure of insect populations and the divergence of insect biotypes.

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