scholarly journals Population Genetics of Bactrocera minax (Diptera: Tephritidae) in China Based on nad4 Gene Sequence

Insects ◽  
2019 ◽  
Vol 10 (8) ◽  
pp. 236
Author(s):  
Feng Hong ◽  
Lizhi Gao ◽  
Hong-Liang Han ◽  
Pan Wang ◽  
Jia Wang ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Structure ◽  
Southern China ◽  
Phylogenetic Analyses ◽  
Discrete Distribution ◽  
Central China ◽  
Western China ◽  
Species Dispersal ◽  
Haplotype Networks ◽  
Nad4 Gene

Bactrocera minax (Enderlein) (Diptera: Tephritidae) is an important citrus pest in Asia with a non-uniform distribution. In some locations, it had been reported to occur but was either eradicated or disappeared itself. To understand species dispersal of B. minax, we collected and analyzed 359 individuals from 18 localities in China. One mitochondrial DNA gene fragment (nad4) was used to investigate the genetic diversity and population genetic structure of B. minax. The populations were divided by phylogenetic analyses and statistical parsimony haplotype networks into three branches: a Central China (CC) branch, a Western China (WC) branch, and a Southern China (SC) branch. A total of 93 variable sites (15.6% of the 595 bp alignment) and 91 unique haplotypes were observed in the 359 individuals scored from the nad4 gene of the 18 B. minax populations. This indicated that B. minax had a high level of genetic diversity. These populations also showed a discrete distribution in both the scatter plots of genetic versus geographical distance for pairwise population comparisons and the median-joining network of haplotypes, which revealed the strong genetic structure of B. minax.

Population genetic structure of golden pheasant Chrysolophus pictus in the Qinling Mountains, China

2012 ◽  
Vol 62 (2) ◽  
pp. 231-243 ◽  
Author(s):  
Zuhao Huang ◽  
Xiaoping Yu ◽  
Wei Liang
Keyword(s):  
Mitochondrial Dna ◽  
Genetic Structure ◽  
Population Genetic Structure ◽  
Population Genetic ◽  
Southern China ◽  
Phylogenetic Analyses ◽  
Central China ◽  
Qinling Mountains ◽  
Geographical Isolation ◽  
Natural Barrier

The golden pheasant (Chrysolophus pictus) is an endemic pheasant of central China and is protected under national legislation. The Qinling Mountains form a natural barrier between northern and southern China. We investigated the population genetic structure using 1123 nucleotides of mitochondrial DNA (mtDNA) control-region from 55 individuals sampled from five populations of gold pheasant in the Qinling Mountains. We found sixteen haplotypes defined by fourteen polymorphic sites. Phylogenetic analyses showed that the haplotypes sampled from the five putative populations did not cluster into separate geographic branches. There was an insignificant genetic differentiation among the putative populations (except GSTS population), probably due to high levels of gene flow. Results from the mismatch distribution and neutrality test analyses indicated the populations did not experience a range expansion over the course of their histories. They also suggested there was no geographical isolation shaped by the Qingling Mountains for Chrysolophus pictus.

scholarly journals Population genetic structure and variability in Lindera glauca (Lauraceae) indicates low levels of genetic diversity and skewed sex ratios in natural populations in mainland China

PeerJ ◽  
2020 ◽  
Vol 8 ◽  
pp. e8304 ◽  
Author(s):  
Biao Xiong ◽  
Limei Zhang ◽  
Shubin Dong ◽  
Zhixiang Zhang
Keyword(s):  
Genetic Diversity ◽  
Genetic Structure ◽  
Isolation By Distance ◽  
Sex Ratios ◽  
Mainland China ◽  
Small Sample ◽  
Chloroplast Microsatellites ◽  
Wild Populations ◽  
Haplotype Networks ◽  
Low Levels

Lindera glauca (Lauraceae) is a tree of economic and ecological significance that reproduces sexually and asexually via apomictic seeds. It is widely distributed in the low-altitude montane forests of East Asia. Despite the potential implications of a mixed reproductive system in terms of genetic diversity, few studies have focused on this aspect. In this study, the genetic structure of wild populations of L. glauca was investigated via genetic analyses. Overall, 13 nuclear microsatellites (nSSRs) and five chloroplast microsatellites (cpSSRs) were used to genotype 300 individual plants, taken from 20 wild populations (a small sample size in some wild populations is due to the limitation of its specific reproduction, leading to certain limitations in the results of this study) and two cultivated populations ranging across nearly the entire natural distribution of mainland China. The populations exhibited low levels of genetic diversity (nSSR: AR = 1.75, Ho = 0.32, He = 0.36; cpSSR: Nb = 2.01, Hrs = 0.40), and no significant effect of isolation by distance between populations existed, regardless of marker type (nSSR: R2 = 0.0401, P = 0.068; cpSSR: R2 = 0.033, P = 0.091). Haplotype networks showed complex relationships among populations, and the H12 haplotype was predominant in most populations. Analyses of molecular variance obtained with nuclear markers (Fsc = 0.293, FST = 0.362) and chloroplast markers (Fsc = 0.299, FST = 0.312) were similar. The migration ratio of pollen flow versus seed flow in this study was negative (r = −1.149). Results suggest that weak barriers of dispersal between populations and/or the similarity of founders shared between neighbors and distant populations are indicative of the gene flow between populations more likely involving seeds. Wild L. glauca in mainland China was inferred to have highly skewed sex ratios with predominant females. In addition, some populations experienced a recent bottleneck effect, especially in Gujianshan, Chongqing, and southwest China (population GJS). It is suggested that few wild male individuals should be conserved in order to maintain overall genetic diversity in the wild populations of this species. These findings provide important information for the sustainable utilization and preservation of the overall genetic diversity of L. glauca.

Phenotypic and genotypic signature of saponin chemical composition in Chinese wild soybean (Glycine soja): revealing genetic diversity, geographical variation and dispersal history of the species

2018 ◽  
Vol 69 (11) ◽  
pp. 1126
Author(s):  
Yuya Takahashi ◽  
Xiang-Hua Li ◽  
Chigen Tsukamoto ◽  
Ke-Jing Wang
Keyword(s):  
Genetic Diversity ◽  
Chemical Composition ◽  
Genetic Structure ◽  
Southern China ◽  
Glycine Soja ◽  
Wild Soybean ◽  
Ice Age ◽  
High Genetic Diversity ◽  
The North ◽  
Or Genes

Saponin chemical composition was phenotyped and genotyped, and saponin composition-based geographical genetic diversity and differentiation were evaluated in Chinese wild soybean (Glycine soja Sieb. & Zucc.). Thirty-two phenotypes and 34 genotypes were confirmed from 3805 wild soybean accessions. Eleven phenotypes (AaαK, AaαIK, AaαIJK, AaBcEαJ, AaBcαK, AbEαIJ, AbαK, AbαIK, AbαIJK, AbβHAb and Aβ0) were newly detected. Four genes had frequencies: Sg-1a 78.8% and Sg-1b 21.0% at the Sg-1 locus; Sg-4 30.7% and Sg-6e 13.7% at their respective loci. The north-eastern and southern populations showed high genetic diversity; the Northeast region contained more novel variants (AuAe, A0, A0Bc, αH, αI αJ, αK, and AbβHAb), and the southern populations contained high frequencies of the Sg-4 gene. Gene differentiation (Fst) analysis suggested that Sg-4 and four group-α saponin alleles or genes (Sg-6e, Sg-6h, Sg-6i, Sg-6j) were important factors influencing the genetic structure and differentiation in Chinese wild soybeans. Geographical differentiation was characterised mainly by latitudinal differences, with two primary groups (north and south) based on saponin genes. Chinese wild soybean accessions differed from Japanese and South Korean ones in genetic structure based on saponin composition, the latter two being likely to have spread from southern China in the glacial stages during the last Ice Age.

scholarly journals Occurrence and source apportionment of perfluoroalkyl acids (PFAAs) in the atmosphere in China

2019 ◽  
Vol 19 (22) ◽  
pp. 14107-14117 ◽  
Author(s):  
Deming Han ◽  
Yingge Ma ◽  
Cheng Huang ◽  
Xufeng Zhang ◽  
Hao Xu ◽  
...  
Keyword(s):  
Degradation Products ◽  
Southern China ◽  
Eastern China ◽  
Northern China ◽  
Central China ◽  
Western China ◽  
Perfluoroalkyl Acids ◽  
Average Value ◽  
Pmf Model ◽  
Air Sampler

Abstract. Perfluoroalkyl acids (PFAAs) are a form of toxic pollutant that can be transported across the globe and accumulated in the bodies of wildlife and humans. A nationwide geographical investigation considering atmospheric PFAAs via a passive air sampler (PAS) based on XAD (a styrene–divinylbenzene copolymer) was conducted in 23 different provinces/municipalities/autonomous regions in China, which provides an excellent chance to investigate their occurrences, spatial trends, and potential sources. The total atmospheric concentrations of 13 PFAAs (n=268) were 6.19–292.57 pg m−3, with an average value of 39.84±28.08 pg m−3, which were higher than other urban levels but lower than point source measurements. Perfluorooctanoic acid (PFOA) was the dominant PFAA (20.6 %), followed by perfluorohexanoic acid (PFHxA), perfluorooctane sulfonate (PFOS), and perfluoroheptanoic acid (PFPeA). An increasing seasonal trend of PFAA concentrations was shown as summer < autumn < spring < winter, which may be initiated by stagnant meteorological conditions. Spatially, the content of PFAAs displayed a declining gradient trend of central China > northern China > eastern China > north-eastern China > south-western China > north-western China > southern China, and Henan contributed the largest proportion of PFAAs. Four sources of PFAAs were identified using a positive matrix factorization (PMF) model, including PFOS-based products (26.1 %), products based on PFOA and perfluorononanoic acid (PFNA; 36.6 %), degradation products of fluorotelomer-based products (15.5 %), and an unknown source (21.8 %).

scholarly journals Patterns and trends of high-impact weather in China during 1959–2014

2016 ◽  
Vol 16 (3) ◽  
pp. 855-869 ◽  
Author(s):  
Jun Shi ◽  
Kangmin Wen ◽  
Linli Cui
Keyword(s):  
Southern China ◽  
Eastern China ◽  
High Impact ◽  
Northeastern China ◽  
Central China ◽  
Western China ◽  
Tibet Plateau ◽  
High Mountain ◽  
Mitigation And Adaptation ◽  
High Impact Weather

Abstract. The spatial and temporal characteristics of the frequencies of four types of high-impact weather (HIW), i.e. snowfall, thunderstorms, fog and hailstorms, were analysed in China during 1959–2014. Results indicate a significant decrease in the number of snowfall days, thunderstorm days and thunderstorm spells in all six regions of China, with regional decreasing rates of 0.1–3.4 days, 1.6–5.1 days and 0.23–0.77 times per decade respectively. The number of foggy days, hailstorm days and snowfall spells decreased at rates of 0.2–1.8 days, 0.1–0.7 days and 0.14–0.44 times per decade respectively in almost all regions and fog and hailstorm spells decreased at rates of 0.06–0.17 and 0.001–0.043 times per decade respectively in most regions of China. Spatially, there was more snowfall in northeastern China and western China, and more thunderstorms in southern China and southwestern China. The number of fog events was larger in some high mountain stations, eastern China and central China. Hailstorms were concentrated on Qinghai–Tibet Plateau. Over the past 56 years, snowfall days, thunderstorm days and thunderstorm spells decreased in most parts of China, and hailstorm days decreased in northeastern China, most parts of northern China and Tibet, southern Qinghai and western Sichuan. The spatial trends of foggy days, foggy spells, snowfall spells and hailstorm spells were not significant in most parts of China. With global warming, some types of HIW are likely to increase in their intensities, so more mitigation and adaptation strategies are still essential for local government and the public in China.

scholarly journals Employing Genome-Wide SNP Discovery to Characterize the Genetic Diversity in Cinnamomum camphora Using Genotyping by Sequencing

Forests ◽  
2021 ◽  
Vol 12 (11) ◽  
pp. 1511
Author(s):  
Xue Gong ◽  
Aihong Yang ◽  
Zhaoxiang Wu ◽  
Caihui Chen ◽  
Huihu Li ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
East Asia ◽  
Japanese Population ◽  
Eastern China ◽  
Genotyping By Sequencing ◽  
Central China ◽  
Western China ◽  
Cinnamomum Camphora ◽  
Ecological Value ◽  
Genome Wide

Cinnamomum camphora (L.) J.Presl is a representative tree species of evergreen broad-leafed forests in East Asia and has exceptionally high economic, ornamental, and ecological value. However, the excessive exploitation and utilization of C. camphora trees have resulted in the shrinking of wild population sizes and rare germplasm resources. In this study, we characterized 171 C. camphora trees from 39 natural populations distributed throughout the whole of China and one Japanese population. We investigated genetic diversity and population structure using genome-wide single-nucleotide polymorphism (SNP) identified by genotyping by sequencing (GBS) technology. The results showed the genetic diversity of the C. camphora populations from western China > central China > eastern China. Moreover, the Japanese population showed the highest diversity among all populations. The molecular variance analysis showed 92.03% of the genetic variation within populations. The average pairwise FST was 0.099, and gene flow Nm was 2.718, suggesting a low genetic differentiation among populations. Based on the genetic clustering analysis, the 40 C. camphora populations clustered into three major groups: Western China, Central China, and Eastern China + Japan. Eastern China’s population had the closest genetic relationship with the Japanese population, suggesting possible gene exchange between the two adjacent areas. This study furthers our understanding of the genetic diversity and genetic structure of C. camphora in East Asia and provides genetic tools for developing strategies of C. camphora germplasm utilization.

scholarly journals Population Genetic Structure Reveals Two Lineages of Amynthas triastriatus (Oligochaeta: Megascolecidae) in China, with Notes on a New Subspecies of Amynthas triastriatus

2020 ◽  
Vol 17 (5) ◽  
pp. 1538
Author(s):  
Yan Dong ◽  
Jibao Jiang ◽  
Zhu Yuan ◽  
Qi Zhao ◽  
Jiangping Qiu
Keyword(s):  
Genetic Diversity ◽  
Genetic Structure ◽  
Population Genetic Structure ◽  
Population Genetic ◽  
Southern China ◽  
Divergence Time ◽  
Diversity Indices ◽  
Structure Study ◽  
Divergence Time Estimates ◽  
Quaternary Glaciation

Amynthas triastriatus (Oligochaete: Megascolecidae) is a widely distributed endemic species in Southern China. To shed light on the population genetic diversity and to elucidate the population differentiation and dispersal of A. triastriatus, a population genetic structure study was undertaken based on samples from 35 locations collected from 2010 to 2016. Two exclusive lineages within A. triastriatus—lineage A and lineage B—were revealed. Lineage A was mainly distributed at high altitudes while lineage B was mainly distributed at low altitudes in Southeast China. The genetic diversity indices indicated that the populations of A. triastriatus had a strong genetic structure and distinct dispersal histories underlying the haplogroups observed in this study. Combined with morphological differences, these results indicated a new cryptic subspecies of A. triastriatus. Lineage A was almost degenerated to parthenogenesis and lineage B had a trend to parthenogenesis, which suggested that parthenogenesis could be an internal factor that influenced the differentiation and dispersal of A. triastriatus. The divergence time estimates showed that A. triastriatus originated around Guangxi and Guangdong provinces and generated into two main lineages 2.97 Ma (95%: 2.17–3.15 Ma) at the time of Quaternary glaciation (2.58 Ma), which suggested that the Quaternary glaciation may have been one of main factors that promoted the colonization of A. triastriatus.

Phylogeography and genetic structure of the slow worms Anguis cephallonica and Anguis graeca (Squamata: Anguidae) from the southern Balkan Peninsula

2014 ◽  
Vol 35 (2) ◽  
pp. 263-269 ◽  
Author(s):  
Evanthia Thanou ◽  
Sinos Giokas ◽  
Panagiotis Kornilios
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Genetic Structure ◽  
Genetic Similarity ◽  
Morphological Study ◽  
Phylogenetic Analyses ◽  
Morphological Characteristics ◽  
Balkan Peninsula ◽  
Intraspecific Genetic Diversity ◽  
Well Differentiated

Two slow worm species are distributed at the southernmost part of the Balkan Peninsula: Anguis cephallonica, an endemic of the Peloponnese and the islands Zakynthos, Ithaki and Kephallonia, and A. graeca. Here, we investigate the intraspecific genetic diversity of A. cephallonica from the Peloponnese and Kephallonia and analyse A. graeca, from the northern Peloponnese, where it is found in sympatry with A. cephallonica. MtDNA and nDNA phylogenetic analyses confirm the genetic similarity of Peloponnesian and Kephallonian populations of A. cephallonica and reveal significant mtDNA genetic variation within it, probably related to the occurrence of multiple subrefugia in the Peloponnese. Peloponnesian A. graeca populations are genetically similar to non-Peloponnesian conspecifics implying recent dispersal to the Peloponnese. In contrast to the genetic markers, morphological characteristics (such as the number of mid-body scale-rows) failed to distinguish between Peloponnesian A. cephallonica and A. graeca. Although the former species is believed to be well-differentiated from its congeneric taxa, a thorough morphological study is needed.

The genetic structure of the spectacled bear (Tremarctos ornatus; Ursidae, Carnivora) in Colombia by means of mitochondrial and microsatellite markers

2020 ◽  
Vol 101 (4) ◽  
pp. 1072-1090
Author(s):  
Manuel Ruiz-García ◽  
Jessica Yanina Arias Vásquez ◽  
Héctor Restrepo ◽  
Carlos Herney Cáceres-Martínez ◽  
Joseph Mark Shostell
Keyword(s):  
Genetic Diversity ◽  
Gene Flow ◽  
Genetic Structure ◽  
Isolation By Distance ◽  
Phylogenetic Analyses ◽  
Population Expansion ◽  
Sudden Expansion ◽  
Population Decrease ◽  
Geographical Regions ◽  
Show Evidence

Abstract The spectacled bear (Ursidae: Tremarctos ornatus) is an emblematic umbrella species and one of the top carnivores in the Andean mountains. It is also listed as vulnerable by IUCN and as endangered by CITES. We analyzed the genetic structure of this species in nine geographical regions representing the three Andean Cordilleras in Colombia. We sequenced six mitochondrial genes in 115 spectacled bears; a subset of these specimens (n = 61) were genotyped at seven nuclear microsatellites. We addressed three objectives: 1) determine the genetic diversity and historical demographic changes of the spectacled bear in Colombia; 2) determine phylogeographic patterns of genetic divergence among spectacled bear populations in Colombia; and 3) estimate the levels of gene flow among different regions of Colombia. Our analyses show evidence of high mitochondrial genetic diversity in spectacled bears, both in Colombia as well as in each of the nine regions, most particularly Norte de Santander, Nariño, and Antioquia-Córdoba. In addition, we detected population expansion in Colombia that occurred around 24,000 years ago, followed by a population decrease during the last 7,000 years, and a sudden expansion in the last 300 years. Phylogenetic analyses showed few well-supported clades, with some haplotypes detected in all the departments and Colombian Andean Cordilleras, and other haplotypes restricted to certain geographical areas (Antioquia, Norte de Santander, Cundinamarca, and Nariño). We detected significant genetic heterogeneity among some departments and among the three Colombian Andean Cordilleras for both mitochondrial and nuclear genes. Nevertheless, the moderate levels of gene flow estimated from FST statistics suggest that geographical barriers have not been definitive obstacles to the dispersion of the spectacled bear throughout Colombia. Despite these gene flow estimates, significant spatial autocorrelation was detected for spectacled bear in Colombia, where two kinds of spatial patterns were discovered: genetic patches of 144 km of diameter, and isolation by distance among bears separated from 578 to 800 km. The two most northern spectacled bear populations of Colombia (Norte de Santander and Antioquia) also were the two most differentiated. Their distinctiveness may qualify them as distinct Management Units (MUs) in the context of conservation policies for the spectacled bear in Colombia.

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