Genetic diversity and population structure of Echinococcus multilocularis: An in-silico global analysis.

IF 1.5 Q3 AGRICULTURE, DAIRY & ANIMAL SCIENCE
Journal of Advanced Veterinary and Animal Research Pub Date : 2024-06-04 eCollection Date: 2024-06-01 DOI:10.5455/javar.2024.k772
Ayed Alshammari, Muhammad Irshad Subhani, Majed H Wakid, Abdulsalam A M Alkhaldi, Shujaat Hussain, Muhammad Abdullah Malik, Muhammad Saqib, Warda Qamar, Mughees Aizaz Alvi
{"title":"Genetic diversity and population structure of <i>Echinococcus multilocularis</i>: An <i>in-silico</i> global analysis.","authors":"Ayed Alshammari, Muhammad Irshad Subhani, Majed H Wakid, Abdulsalam A M Alkhaldi, Shujaat Hussain, Muhammad Abdullah Malik, Muhammad Saqib, Warda Qamar, Mughees Aizaz Alvi","doi":"10.5455/javar.2024.k772","DOIUrl":null,"url":null,"abstract":"<p><strong>Objective: </strong>Alveolar echinococcosis is caused by <i>Echinococcus multilocularis</i>, a parasite of zoonotic significance with a wide range of intermediate and final hosts, and the parasite survives successfully in diversified conditions. Plentiful studies have been done to study the genetic structure of the population of the parasite and the level of intimate kinship using mitochondrial (mt) DNA. The present study was conducted to investigate the population structure, genetic variation, and phylogenetic relationship of various isolates of <i>E. multiocularis</i> submitted to GenBank worldwide. Sequences of mt genes (mt-cytochrome c oxidase (<i>cox</i>1), mt-NADH dehydrogenase <i>(nad</i>1)) of <i>E.</i> <i>multilocularis</i> were analyzed to achieve the set goals.</p><p><strong>Materials and methods: </strong>A total of 275 and 124 gene sequences of mt-<i>cox</i>1 and mt-<i>nad</i>1 belonging to <i>E</i>. <i>multilocularis,</i> respectively, were retrieved from the National Center for Biotechnology Information GenBank. The retrieved sequences were subjected to alignment with respective reference sequences using MEGA software. The PopArt software was used to establish median-joining networks, while DnaSp was used to calculate neutrality and diversity indices. MrBayes software was used to investigate the phylogenetic association between haplotypes based on Bayesian phylogeny.</p><p><strong>Results: </strong>Approximately 13 and 20 distinctive haplotypes of <i>nad</i>1 and <i>cox</i>1 genes, respectively, were observed in the present study. In both of the mt genes, diversity indices indicated low haplotype (mt-<i>cox</i>1 = 0.140; mt-<i>nad</i>1 = 0.374) and nucleotide (mt-<i>cox</i>1 = 0.00111; mt-<i>nad</i>1 = 0.00287) diversities. The values of Tajima's D and Fu Fs for a population of both of the genes under study were found to be negative.</p><p><strong>Conclusion: </strong>This study is a maiden attempt to provide insights into the population structure and genetic variation of <i>E. multilocularis</i> on a global scale. However, it is suggested that to better understand the population structure and genetic diversity of <i>E</i>. <i>multilocularis,</i> more geographical locations and amplifications of full-length gene sequences should be considered, which could be helpful in widening the insights into the genetic diversity of <i>E</i>. <i>multilocularis</i>.</p>","PeriodicalId":14892,"journal":{"name":"Journal of Advanced Veterinary and Animal Research","volume":"11 2","pages":"264-274"},"PeriodicalIF":1.5000,"publicationDate":"2024-06-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11296166/pdf/","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of Advanced Veterinary and Animal Research","FirstCategoryId":"1085","ListUrlMain":"https://doi.org/10.5455/javar.2024.k772","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"2024/6/1 0:00:00","PubModel":"eCollection","JCR":"Q3","JCRName":"AGRICULTURE, DAIRY & ANIMAL SCIENCE","Score":null,"Total":0}
引用次数: 0

Abstract

Objective: Alveolar echinococcosis is caused by Echinococcus multilocularis, a parasite of zoonotic significance with a wide range of intermediate and final hosts, and the parasite survives successfully in diversified conditions. Plentiful studies have been done to study the genetic structure of the population of the parasite and the level of intimate kinship using mitochondrial (mt) DNA. The present study was conducted to investigate the population structure, genetic variation, and phylogenetic relationship of various isolates of E. multiocularis submitted to GenBank worldwide. Sequences of mt genes (mt-cytochrome c oxidase (cox1), mt-NADH dehydrogenase (nad1)) of E. multilocularis were analyzed to achieve the set goals.

Materials and methods: A total of 275 and 124 gene sequences of mt-cox1 and mt-nad1 belonging to E. multilocularis, respectively, were retrieved from the National Center for Biotechnology Information GenBank. The retrieved sequences were subjected to alignment with respective reference sequences using MEGA software. The PopArt software was used to establish median-joining networks, while DnaSp was used to calculate neutrality and diversity indices. MrBayes software was used to investigate the phylogenetic association between haplotypes based on Bayesian phylogeny.

Results: Approximately 13 and 20 distinctive haplotypes of nad1 and cox1 genes, respectively, were observed in the present study. In both of the mt genes, diversity indices indicated low haplotype (mt-cox1 = 0.140; mt-nad1 = 0.374) and nucleotide (mt-cox1 = 0.00111; mt-nad1 = 0.00287) diversities. The values of Tajima's D and Fu Fs for a population of both of the genes under study were found to be negative.

Conclusion: This study is a maiden attempt to provide insights into the population structure and genetic variation of E. multilocularis on a global scale. However, it is suggested that to better understand the population structure and genetic diversity of E. multilocularis, more geographical locations and amplifications of full-length gene sequences should be considered, which could be helpful in widening the insights into the genetic diversity of E. multilocularis.

多角棘球蚴的遗传多样性和种群结构:模拟全球分析
目的:肺泡棘球蚴病是由多形性棘球蚴引起的,这是一种具有人畜共患病意义的寄生虫,中间宿主和最终宿主范围很广,寄生虫能在多种条件下成功存活。已有大量研究利用线粒体 DNA 研究了寄生虫种群的遗传结构和亲缘关系。本研究旨在调查提交到 GenBank 的多角体 E. 的种群结构、遗传变异和系统发育关系。为实现既定目标,本研究分析了多角体 E. 的 mt 基因(mt-细胞色素 c 氧化酶(cox1)、mt-NADH 脱氢酶(nad1))序列:从美国国家生物技术信息中心 GenBank 中检索到多角体 mt-cox1 和 mt-nad1 的基因序列,分别为 275 条和 124 条。利用 MEGA 软件将检索到的序列与各自的参考序列进行比对。PopArt 软件用于建立中位连接网络,DnaSp 用于计算中性指数和多样性指数。使用 MrBayes 软件根据贝叶斯系统发育法研究单倍型之间的系统发育关联:本研究分别观察到约 13 个和 20 个不同的 nad1 和 cox1 基因单倍型。在这两个 mt 基因中,多样性指数显示出较低的单倍型(mt-cox1 = 0.140;mt-nad1 = 0.374)和核苷酸(mt-cox1 = 0.00111;mt-nad1 = 0.00287)多样性。研究发现,两个基因群体的田岛 D 值和 Fu Fs 值均为负值:本研究是在全球范围内深入了解多角体E.种群结构和遗传变异的首次尝试。然而,为了更好地了解多角体的种群结构和遗传多样性,建议考虑更多的地理位置和全长基因序列的扩增,这将有助于扩大对多角体遗传多样性的了解。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
求助全文
约1分钟内获得全文 求助全文
来源期刊
CiteScore
2.70
自引率
7.10%
发文量
41
审稿时长
6 weeks
期刊介绍: Journal of Advanced Veterinary and Animal Research (JAVAR) - is an open access, international, peer-reviewed, quarterly, highly-indexed scientific journal publishing original research findings and reviews on all aspects of veterinary and animal sciences. Basic and applied researches on- - Anatomy & histology - Animal health economics - Animal nutrition - Animal reproduction - Animal science - Antimicrobial resistance (AMR) - Biochemistry - Biotechnology - Dairy science - Epidemiology - Food hygiene and technology - Genetics and breeding - Immunology - Microbiology - Parasitology - Pathology - Pharmacology & toxicology - Physiology - Poultry science - Preventive veterinary medicine - Public health - Surgery & obstetrics - Veterinary extension studies - Wildlife & aquatic medicine - Zoo animal medicine.
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
确定
请完成安全验证×
copy
已复制链接
快去分享给好友吧!
我知道了
右上角分享
点击右上角分享
0
联系我们:info@booksci.cn Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。 Copyright © 2023 布克学术 All rights reserved.
京ICP备2023020795号-1
ghs 京公网安备 11010802042870号
Book学术文献互助
Book学术文献互助群
群 号:481959085
Book学术官方微信