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Wang Y, Wang HT, Chen YK, Yu J, Yang Y. The complete chloroplast genome of Madhuca hainanensis (Sapotaceae), an endemic and endangered timber species in Hainan Island, China. Mitochondrial DNA B Resour 2021; 6:755-757. [PMID: 33796645 PMCID: PMC7971245 DOI: 10.1080/23802359.2021.1878954] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
Abstract
Madhuca hainanensis Chun & F.C.How is an endangered and endemic species in Hainan Island, and it was ranked as a VU (Vulnerable) species in China. In this study, we reported its complete chloroplast (cp) genome sequence based on high throughput sequencing data. The complete cp genome was 159,630 bp in length, containing two short inverted repeat (IRs) of 26,093 bp, a large single copy (LSC) region of 88,846 bp and a small single copy (SSC) region of 18,598 bp. Totally, the cp genome contained 131 genes, including 86 protein coding genes (PCG), eight rRNA genes and 37 tRNAs. The GC contents of this genome was 36.8%. A maximum likelihood (ML) phylogenetic analysis indicates that M. hainanensis is closely related to Sinosideroxylon wightianum.
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Affiliation(s)
- Yong Wang
- Ministry of Education Key Laboratory for Ecology of Tropical Islands, College of Life Sciences, Hainan Normal University, Haikou, China
| | - Hai-Tao Wang
- Institute of Cotton, Hebei Academy of Agriculture and Forestry Sciences, Shijiazhuang, China
| | - Yu-Kai Chen
- Ministry of Education Key Laboratory for Ecology of Tropical Islands, College of Life Sciences, Hainan Normal University, Haikou, China
| | - Jing Yu
- College of Horticulture, Hainan University, Haikou, China
| | - Yong Yang
- Ministry of Education Key Laboratory for Ecology of Tropical Islands, College of Life Sciences, Hainan Normal University, Haikou, China
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Zhu C, Chen P, Han Y, Ruan L. Low Genetic Diversity and Low Gene Flow Corresponded to a Weak Genetic Structure of Ruddy-Breasted Crake (Porzana fusca) in China. Biochem Genet 2018; 56:586-617. [PMID: 29754387 DOI: 10.1007/s10528-018-9862-9] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2017] [Accepted: 05/04/2018] [Indexed: 10/16/2022]
Abstract
The Ruddy-breasted Crake (Porzana fusca) is an extremely poorly known species. Although it is not listed as globally endangered, in recent years, with the interference of climate change and human activities, its habitat is rapidly disappearing and its populations have been shrinking. There are two different life history traits for Ruddy-breasted Crake in China, i.e., non-migratory population in the south and migratory population in the north of China. In this study, mitochondrial control sequences and microsatellite datasets of 88 individuals sampled from 8 sites were applied to analyze their genetic diversity, genetic differentiation, and genetic structure. Our results indicated that low genetic diversity and genetic differentiation exit in most populations. The neutrality test suggested significantly negative Fu's Fs value, which, in combination with detection of the mismatch distribution, indicated that population expansion occurred in the interglacier approximately 98,000 years ago, and the time of the most recent common ancestor (TMRCA) was estimated to about 202,705 years ago. Gene flow analysis implied that the gene flow was low, but gene exchange was frequent among adjacent populations. Both phylogenetic and STRUCTURE analyses implied weak genetic structure. In general, the genetic diversity, gene flow, and genetic structure of Ruddy-breasted Crake were low.
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Affiliation(s)
- Chaoying Zhu
- School of Life Sciences, State Ministry of Education Key Laboratory of Poyang Lake Environment and Resource Utilization, Nanchang University, Nanchang, 330031, People's Republic of China
| | - Peng Chen
- School of Life Sciences, State Ministry of Education Key Laboratory of Poyang Lake Environment and Resource Utilization, Nanchang University, Nanchang, 330031, People's Republic of China
| | - Yuqing Han
- School of Life Sciences, State Ministry of Education Key Laboratory of Poyang Lake Environment and Resource Utilization, Nanchang University, Nanchang, 330031, People's Republic of China
| | - Luzhang Ruan
- School of Life Sciences, State Ministry of Education Key Laboratory of Poyang Lake Environment and Resource Utilization, Nanchang University, Nanchang, 330031, People's Republic of China.
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Nimbalkar SD, Jade SS, Kauthale VK, Agale S, Bahulikar RA. Genetic diversity in the candidate trees of Madhuca indica J. F. Gmel. (Mahua) revealed by inter-simple sequence repeats (ISSRs). 3 Biotech 2018; 8:143. [PMID: 29484282 PMCID: PMC5818362 DOI: 10.1007/s13205-018-1168-4] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2017] [Accepted: 02/10/2018] [Indexed: 11/28/2022] Open
Abstract
Madhuca indica provides livelihood to several tribal people in India, where the flowers are used for extraction of sweet juices having multiple applications. Certain trees have more value as judged by the tribal people mainly based on yield and quality performance of the trees, and these trees were selected for the genetic diversity analyses. Genetic diversity of 48 candidate Mahua trees from Etapalli, Dadagaon, and Jawhar, Maharashtra, India, was assessed using ISSR markers. Fourteen ISSR primers revealed a total of 132 polymorphic bands giving overall 92% polymorphism. Genetic diversity, in terms of expected number of alleles (Ne), the observed number of alleles (Na), Nei's genetic diversity (H), and Shannon's information index (I) was 1.921, 1.333, 0.211, and 0.337, respectively, and suggested lower genetic diversity. Region wise analysis revealed higher genetic diversity for site Etapalli (H = 0.206) and lowest at Dhadgaon (H = 0.140). Etapalli area possesses higher forest cover than Dhadgaon and Jawhar. Additionally, in Dhadgaon and Jawhar M. indica trees are restricted to field bunds; both reasons might contribute to lower genetic diversity in these regions. The dendrogram and the principal coordinate analyses showed no region-specific clustering. The clustering patterns were supported by AMOVA where higher genetic variance was observed within trees and lower variance among regions. Long-distance dispersal and/or higher human interference might be responsible for low diversity and higher genetic variance within the candidate trees.
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Affiliation(s)
- S. D. Nimbalkar
- BAIF Development Research Foundation, Central Research Station, Urulikanchan, Tq. Haveli, Dist., Pune, Maharashtra 412 202 India
| | - S. S. Jade
- BAIF Development Research Foundation, Central Research Station, Urulikanchan, Tq. Haveli, Dist., Pune, Maharashtra 412 202 India
| | - V. K. Kauthale
- BAIF Development Research Foundation, Central Research Station, Urulikanchan, Tq. Haveli, Dist., Pune, Maharashtra 412 202 India
| | - S. Agale
- BAIF Development Research Foundation, Central Research Station, Urulikanchan, Tq. Haveli, Dist., Pune, Maharashtra 412 202 India
| | - R. A. Bahulikar
- BAIF Development Research Foundation, Central Research Station, Urulikanchan, Tq. Haveli, Dist., Pune, Maharashtra 412 202 India
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Yang JC, Li QQ, Yu N, Yin GT, Wu ZF, Li RS, Zou WT. Genetic diversity and structure among natural populations of Sindora glabra in Hainan Island, China as revealed by ISSR markers. BIOCHEM SYST ECOL 2016. [DOI: 10.1016/j.bse.2016.09.005] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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Omondi SF, Odee DW, Ongamo GO, Kanya JI, Khasa DP. Genetic consequences of anthropogenic disturbances and population fragmentation in Acacia senegal. CONSERV GENET 2016. [DOI: 10.1007/s10592-016-0854-1] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
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Isolation of NBS-LRR RGAs from invasive Wedelia trilobata and the calculation of evolutionary rates to understand bioinvasion from a molecular evolution perspective. BIOCHEM SYST ECOL 2015. [DOI: 10.1016/j.bse.2015.05.004] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Zhai DL, Cannon CH, Dai ZC, Zhang CP, Xu JC. Deforestation and fragmentation of natural forests in the upper Changhua watershed, Hainan, China: implications for biodiversity conservation. ENVIRONMENTAL MONITORING AND ASSESSMENT 2015; 187:4137. [PMID: 25416130 DOI: 10.1007/s10661-014-4137-3] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/22/2014] [Accepted: 11/03/2014] [Indexed: 06/04/2023]
Abstract
Hainan, the largest tropical island in China, belongs to the Indo-Burma biodiversity hotspot. The Changhua watershed is a center of endemism for plants and birds and the cradle of Hainan's main rivers. However, this area has experienced recent and ongoing deforestation and habitat fragmentation. To quantify habitat loss and fragmentation of natural forests, as well as the land-cover changes in the Changhua watershed, we analyzed Landsat images obtained in 1988, 1995, and 2005. Land-cover dynamics analysis showed that natural forests increased in area (97,909 to 104,023 ha) from 1988 to 1995 but decreased rapidly to 76,306 ha over the next decade. Rubber plantations increased steadily throughout the study period while pulp plantations rapidly expanded after 1995. Similar patterns of land cover change were observed in protected areas, indicating a lack of enforcement. Natural forests conversion to rubber and pulp plantations has a general negative effect on biodiversity, primarily through habitat fragmentation. The fragmentation analysis showed that natural forests area was reduced and patch number increased, while patch size and connectivity decreased. These land-cover changes threatened local biodiversity, especially island endemic species. Both natural forests losses and fragmentation should be stopped by strict enforcement to prevent further damage. Preserving the remaining natural forests and enforcing the status of protected areas should be a management priority to maximize the watershed's biodiversity conservation value.
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Affiliation(s)
- De-Li Zhai
- Centre for Mountain Ecosystem Studies (CMES), Kunming Institute of Botany (CAS), Lanhei Road132, Heilongtan, Kunming, 650201, China,
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Local adaptation and phenotypic plasticity both occurred in Wedelia trilobata invasion across a tropical island. Biol Invasions 2014. [DOI: 10.1007/s10530-014-0667-4] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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