Conservation Genetics: From Host to Microbiome

A special issue of Animals (ISSN 2076-2615). This special issue belongs to the section "Wildlife".

Deadline for manuscript submissions: closed (11 November 2023) | Viewed by 3473

Special Issue Editor

College of Life Sciences, Nanjing Normal University, Nanjing 210046, China
Interests: gut microbiome metagenome; microbial ecology; phylogeography; population genetic structure; landscape genetics; adaptive; evolution
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Special Issue Information

Dear Colleagues,

Conservation genetics aims to understand the variation of population genetics, which help to avoid extinction. The main scientific questions in animal conservation include the conservation and restoration of biodiversity using genetic methods. Genetic diversity is one of the three fundamental levels of biodiversity, and decreased genetic diversity may be related to the reduced fitness of animals. Thus, genetic diversity has an essential role in populations’ health and long-term survival.

The animal microbiome (e.g., gut microbiome) plays an essential role in host health and development. An increasing number of studies have determined that animal conservation should also focus on conserving their symbiotic microbiome. For example, anthropogenic influence resulting in habitat loss and fragmentation has led to the loss of either host genetic diversity or symbiotic microbial diversity. Globalization and urbanization also profoundly affect host genetic diversity and symbiotic microbiome. Humans pass their microbiome into wildlife living in the city, and some of these bacteria are opportunistic pathogens. Recently, the conservation metagenome has pushed animal conservation forward by integrating the levels from host genetics and symbiotic microbiome.

Therefore, biodiversity conservation is currently beyond traditional approaches that only focus on host genetics; now, conservation genetics is involved in the genetic roles of the host and their symbiotic microbiome. This Topic will focus on but not be limited to:

  1. The challenges of wildlife genetics and their gut microbiome under urbanization;
  2. The potential effects of habitat loss or fragmentation on animal diversity (host and their symbiotic microbiome);
  3. The putative roles of symbiotic microorganisms in animal restoration or translocation;
  4. Animal adaptation from the host and their symbiotic microorganisms (bacteria, fungi, protist, and virus);
  5. Animal conservation under globalization;
  6. New understandings of biodiversity conservation.

Thus, we invite you to submit your recent findings to this Topic on “Animal Conservation Genetics: From Host to Microbiome” in the form of original research or review articles and communications.

Dr. Lifeng Zhu
Guest Editor

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Keywords

  • wildlife
  • host genetics
  • globalization and urbanization
  • symbiotic microorganisms
  • evolutionary adaptations
  • conservation biology

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Published Papers (2 papers)

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Research

15 pages, 2762 KiB  
Article
Impact of Environmental Food Intake on the Gut Microbiota of Endangered Père David’s Deer: Primary Evidence for Population Reintroduction
by Qiying Mo, Hongyu Yao, Hong Wu and Dapeng Zhao
Animals 2024, 14(5), 728; https://doi.org/10.3390/ani14050728 - 27 Feb 2024
Viewed by 1102
Abstract
Reintroduction has been successful in re-establishing several endangered wild animals in their historical habitats, including Père David’s deer (Elaphurus davidianus). Continuous monitoring of reintroduced individuals is essential for improving the sustainability of ex situ conservation efforts. Despite an increased recognition of [...] Read more.
Reintroduction has been successful in re-establishing several endangered wild animals in their historical habitats, including Père David’s deer (Elaphurus davidianus). Continuous monitoring of reintroduced individuals is essential for improving the sustainability of ex situ conservation efforts. Despite an increased recognition of the significance of the gut microbiome for animal health, the correlation between diet and the gut microbiome in E. davidianus is unclear. In this study, 15 fresh fecal samples of E. davidianus were collected from Tianjin Qilihai Wetland and the association between dietary and gut microbiota composition was evaluated. Microscopic observations showed that Nymphoides peltata [relative density (RD = 0.3514), Phragmites australis (RD = 0.2662), Setaria viridis (RD = 0.1211), and Typha orientalis (RD = 0.1085) were the main dietary plants in the fecal samples. High-throughput 16S rRNA sequencing showed a predominance of the phyla Firmicutes and Proteobacteria and the genus Psychrobacillus (26.53%) in the gut microbiota. The RD of N. peltata was significantly positively correlated with the abundance of Firmicutes (p = 0.005) and the genus UCG-005 (p = 0.024). This study indicates a close association between food digestion and nutrient intake, providing basic monitoring data for the full reintroduction and recovery of wild E. davidianus. Full article
(This article belongs to the Special Issue Conservation Genetics: From Host to Microbiome)
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12 pages, 4802 KiB  
Article
Comparative Analyses of the Fecal Microbiome of Five Wild Black-Billed Capercaillie (Tetrao parvirostris) Flocks
by Xiaodong Gao, Xibao Wang, Xiaoyang Wu, Yongquan Shang, Xuesong Mei, Shengyang Zhou, Qinguo Wei, Guolei Sun, Yuehuan Dong, Weijia Cui and Honghai Zhang
Animals 2023, 13(5), 923; https://doi.org/10.3390/ani13050923 - 3 Mar 2023
Cited by 1 | Viewed by 1746
Abstract
Black-billed capercaillie (Tetrao parvirostris) was listed as a first-class state-protected animal because it was endangered in China (Category I). This study is the first to examine the diversity and composition of T. parvirostris gut microbiome in the wild. We collected fecal [...] Read more.
Black-billed capercaillie (Tetrao parvirostris) was listed as a first-class state-protected animal because it was endangered in China (Category I). This study is the first to examine the diversity and composition of T. parvirostris gut microbiome in the wild. We collected fecal samples from five black-billed capercaillie flock roosting sites (each 20 km apart) in one day. Thirty fecal samples were sequenced with 16S rRNA gene amplicons on the Illumina HiSeq platform. This study is the first to analyze the fecal microbiome composition and diversity of black-billed capercaillie in the wild. At the phylum level, Camplyobacterota, Bacillota, Cyanobacteria, Actinomycetota, and Bacteroidota were the most abundant in the fecal microbiome of black-billed capercaillie. At the genus level, unidentified Chloroplast, Escherichia−Shigella, Faecalitalea, Bifidobacterium, and Halomonas were the dominant genera. Based on alpha and beta diversity analyses, we found no significant differences in the fecal microbiome between five flocks of black-billed capercaillie. Protein families: genetic information processing; protein families: signaling and cellular processes, carbohydrate metabolism; protein families: metabolism and energy metabolism are the main predicted functions of the black-billed capercaillie gut microbiome through the PICRUSt2 method. This study reveals the composition and structure of the fecal microbiome of the black-billed capercaillie under wild survival conditions, and this study provides scientific data for the comprehensive conservation of the black-billed capercaillie. Full article
(This article belongs to the Special Issue Conservation Genetics: From Host to Microbiome)
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