Genetic differentiation of regional populations of the widespread Asiatic toad (Bufo gargarizans), as revealed by development of novel microsatellite markers

2018 ◽  
Vol 66 (6) ◽  
pp. 335
Author(s):  
T. Pan ◽  
P. Yan ◽  
M. Yang ◽  
H. Wang ◽  
I. Ali ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Structure ◽  
Genetic Differentiation ◽  
Genetic Distance ◽  
Yangtze River ◽  
The Yangtze River ◽  
Geographic Scale ◽  
Widespread Species ◽  
Bufo Gargarizans ◽  
Toad Bufo

Dispersal is a key component of a species’ life history, by influencing population persistence, genetic structure, adaptation and maintenance of genetic diversity. The Asiatic toad (Bufo gargarizans) is a widespread species in east Asia. However, we still have no knowledge of what kind of geographical scale equates to genetic differentiation within B. gargarizans. In this study, the population genetics of B. gargarizans was studied at five localities, with the Yangtze River running through the sampling area, in order to detect the level of genetic differentiation and the natural barriers to the species’ dispersal on a small geographic scale, by means of the development and use of novel microsatellite loci. These markers revealed a relatively high level of genetic diversity. Distinct genetic structure among populations in B. gargarizans was observed, as described by genetic distance, AMOVA, PCA and Geneland results. A weak but significant positive correlation between genetic distance and geographical distance. The combination of these findings suggests that the Yangtze River and geographic distance may act as effective barriers for B. gargarizans. These results serve as benchmark data for understanding the impacts of dispersal barriers and continued landscape research on B. gargarizans.

scholarly journals Dynamic genetic diversity and population structure of Coreius guichenoti

ZooKeys ◽  
2021 ◽  
Vol 1055 ◽  
pp. 135-148
Author(s):  
Dongqi Liu ◽  
Feng Lan ◽  
Sicai Xie ◽  
Yi Diao ◽  
Yi Zheng ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Mitochondrial Dna ◽  
Population Structure ◽  
Genetic Differentiation ◽  
Yangtze River ◽  
Fish Passage ◽  
The Yangtze River ◽  
Artificial Breeding ◽  
Significant Difference ◽  
High Elevations

To investigate the genetic effects on the population of Coreius guichenoti of dam constructions in the upper reaches of the Yangtze River, we analyzed the genetic diversity and population structure of 12 populations collected in 2009 and 2019 using mitochondrial DNA (mtDNA) control regions. There was no significant difference in genetic diversity between 2009 and 2019 (P > 0.05), but the population structure tended to become stronger. Genetic differentiation (FST) among five populations (LX, BB, YB, SF and JA) collected in 2009 was not significant (P > 0.05). However, some populations collected in 2019 were significantly differentiated (P < 0.05), indicating that the population structure has undergone change. A correlation analysis showed that the genetic diversity of the seven populations collected in 2019 was significantly negatively correlated with geographical height (r = −0.808, P = 0.028), indicating that the populations at high elevations were more vulnerable than those at low elevations. In order to prevent the further decrease of genetic diversity and population resources, some conservation and restoration suggestions, such as fish passage and artificial breeding, are put forward.

scholarly journals Small-scale spatial genetic structure of Asarum sieboldii metapopulation in a valley

2021 ◽  
Vol 45 (1) ◽  
Author(s):  
Hyeon Jin Jeong ◽  
Jae Geun Kim
Keyword(s):  
Genetic Diversity ◽  
Genetic Structure ◽  
Genetic Differentiation ◽  
Genetic Distance ◽  
Spatial Genetic Structure ◽  
Dispersal Distance ◽  
Forest Understory ◽  
Small Scale ◽  
Low Density ◽  
Stochastic Events

Abstract Background Asarum sieboldii Miq., a species of forest understory vegetation, is an herbaceous perennial belonging to the family Aristolochiaceae. The metapopulation of A. sieboldii is distributed sparsely and has a short seed dispersal distance by ants as their seed distributor. It is known that many flowers of A. sieboldii depend on self-fertilization. Because these characteristics can affect negatively in genetic structure, investigating habitat structure and assessment of genetic structure is needed. A total of 27 individuals in a valley were sampled for measuring genetic diversity, genetic distance, and genetic differentiation by RAPD-PCR. Results The habitat areas of A. sieboldii metapopulation were relatively small (3.78~33.60 m2) and population density was very low (five to seven individuals in 20×20 m quadrat). The habitat of A. sieboldii was a very shady (relative light intensity = 0.9%) and mature forest with a high evenness value (J = 0.81~0.99) and a low dominance value (D = 0.19~0.28). The total genetic diversity of A. sieboldii was quite high (h = 0.338, I = 0.506). A total of 33 band loci were observed in five selected primers, and 31 band loci (94%) were polymorphic. However, genetic differentiation along the valley was highly progressed (Gst = 0.548, Nm = 0.412). The average genetic distance between subpopulations was 0.387. The results of AMOVA showed 52.77% of variance occurs among populations, which is evidence of population structuring. Conclusions It is expected that a small-scale founder effect had occurred, an individual spread far from the original subpopulation formed a new subpopulation. However, geographical distance between individuals would have been far and genetic flow occurred only within each subpopulation because of the low density of population. This made significant genetic distance between the original and new population by distance. Although genetic diversity of A. sieboldii metapopulation is not as low as concerned, the subpopulation of A. sieboldii can disappear by stochastic events due to small subpopulation size and low density of population. To prevent genetic isolation and to enhance the stable population size, conservative efforts such as increasing the size of each subpopulation or the connection between subpopulations are needed.

scholarly journals Genetic diversity and phylogeography of Daphnia similoides sinensis located in the middle and lower reaches of the Yangtze River

2019 ◽  
Vol 9 (8) ◽  
pp. 4362-4372 ◽  
Author(s):  
Jianxun Wu ◽  
Wenping Wang ◽  
Daogui Deng ◽  
Kun Zhang ◽  
Shuixiu Peng ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Yangtze River ◽  
The Yangtze River ◽  
Daphnia Similoides Sinensis

scholarly journals Genetic Diversity of Daphnia pulex in the Middle and Lower Reaches of the Yangtze River

PLoS ONE ◽  
2016 ◽  
Vol 11 (3) ◽  
pp. e0152436 ◽  
Author(s):  
Wenping Wang ◽  
Kun Zhang ◽  
Daogui Deng ◽  
Ya-Nan Zhang ◽  
Shuixiu Peng ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Yangtze River ◽  
Daphnia Pulex ◽  
The Yangtze River

scholarly journals Population Genetics and Evolution Analysis Reveal Diversity and Origin of Ammopiptanthus in China.

2021 ◽  
Author(s):  
Guai-qiang Chai ◽  
Yizhong Duan ◽  
Peipei Jiao ◽  
Zhongyu Du ◽  
Furen Kang
Keyword(s):  
Genetic Diversity ◽  
Genetic Structure ◽  
Genetic Differentiation ◽  
Association Studies ◽  
Natural Populations ◽  
Principal Component ◽  
Nucleotide Polymorphisms ◽  
Future Design ◽  
Ammopiptanthus Nanus ◽  
Genome Wide

Abstract Background：Elucidating and revealing the population genetic structure, genetic diversity and recombination is essential for understanding the evolution and adaptation of species. Ammopiptanthus, which is an endangered survivor from the Tethys in the Tertiary Period, is the only evergreen broadleaf shrub grown in Northwest of China. However, little is known about its genetic diversity and underlying adaptation mechanisms. Results：Here, 111 Ammopiptanthus individuals collected from fifteen natural populations in estern China were analyzed by means of the specific locus amplified fragment sequencing (SLAF-seq). Based on the single nucleotide polymorphisms (SNPs) and insertions and deletions (InDels) detected by SLAF-seq, genetic diversity and markers associated with climate and geographical distribution variables were identified. The results of genetic diversity and genetic differentiation revealed that all fifteen populations showed medium genetic diversity, with PIC values ranging from 0.1648 to 0.3081. AMOVA and Fst indicated that a low genetic differentiation existed among populations. Phylogenetic analysis showed that NX-BG and NMG-DQH of fifteen populations have the highest homology，while the genetic structure analysis revealed that these Ammopiptanthus germplasm accessions were structured primarily along the basis of their geographic collection, and that an extensive admixture occurred in each group. In addition, the genome-wide linkage disequilibrium (LD) and principal component analysis showed that Ammopiptanthus nanus had a more diverse genomic background, and all genetic populations were clearly distinguished, although different degrees of introgression were detected in these groups. Conclusion：Our study could provide guidance to the future design of association studies and the systematic utilization and protection of the genetic variation characterizing the Ammopiptanthus.

Effects of habitat fragmentation on population genetic structure in the white-footed mouse (Peromyscus leucopus)

2001 ◽  
Vol 79 (2) ◽  
pp. 285-295 ◽  
Author(s):  
Catherine A Mossman ◽  
Peter M Waser
Keyword(s):  
Genetic Variation ◽  
Genetic Structure ◽  
Habitat Fragmentation ◽  
Genetic Differentiation ◽  
Population Genetic Structure ◽  
Population Genetic ◽  
Peromyscus Leucopus ◽  
Marginal Effect ◽  
Geographic Scale ◽  
White Footed Mouse

Habitat fragmentation may have significant consequences for population genetic structure because geographic distance and physical barriers may impede gene flow. In this study, we investigated whether habitat fragmentation affects fine-scale genetic structure of populations of the white-footed mouse (Peromyscus leucopus). We studied 27 populations of P. leucopus, 17 in continuous forest and 10 in isolated woodlots. Populations were trapped in pairs that were either 500 or 2000 m apart. We estimated genetic variation at eight P. leucopus specific microsatellite DNA loci. We discovered significant genetic variation within all populations, but no significant differences in numbers of alleles or heterozygosity between populations. For given population pairs, we found significant genetic differentiation even at very short distances, based on multilocus FST estimates. The amount of genetic differentiation between population pairs was similar in the two habitats. Distance had a marginal effect on genetic differentiation when comparing paired populations separated by 2000 m with those separated by 500 m. However, at a larger geographic scale, there was no evidence of isolation by distance. This study confirms that microsatellite-based studies have the potential to detect interpopulation differentiation at an extremely local scale, and suggests that habitat fragmentation has surprisingly few effects on P. leucopus genetic structure.

Sign in / Sign up

Export Citation Format

Share Document