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对孟加拉国圈养白虎的基因组测序。

Genome sequencing of captive white tigers from Bangladesh.

机构信息

Department of Genetics and Animal Breeding, Faculty of Veterinary Medicine, Chattogram Veterinary and Animal Sciences University, Khulshi, Chattogram-4225, Bangladesh.

Chattogram Zoo, Akbar Shah, Chattogram-4202, Bangladesh.

出版信息

BMC Genom Data. 2024 Jun 6;25(1):52. doi: 10.1186/s12863-024-01239-5.

Abstract

OBJECTIVES

The Bengal tiger Panthera tigris tigris, is an emblematic animal for Bangladesh. Despite being the apex predator in the wild, their number is decreasing due to anthropogenic activities such as hunting, urbanization, expansion of agriculture and deforestation. By contrast, captive tigers are flourishing due to practical conservation efforts. Breeding within the small captive population can produce inbreeding depression and genetic bottlenecks, which may limit the success of conservation efforts. Despite past decades of research, a comprehensive database on genetic variation in the captive and wild Bengal tigers in Bangladesh still needs to be included. Therefore, this research aimed to investigate the White Bengal tiger genome to create a resource for future studies to understand variation underlying important functional traits.

DATA DESCRIPTION

Blood samples from Chattogram Zoo were collected for three white Bengal tigers. Genomic DNA for all collected samples were extracted using a commercial DNA extraction kit. Whole genome sequencing was performed using a DNBseq platform. We generated 77 Gb of whole-genome sequencing (WGS) data for three white Bengal tigers (Average 11X coverage/sample). The data we generated will establish a paradigm for tiger research in Bangladesh by providing a genomic resource for future functional studies on the Bengal white tiger.

摘要

目的

孟加拉虎 Panthera tigris tigris 是孟加拉国的标志性动物。尽管它们是野生环境中的顶级掠食者,但由于人类活动,如狩猎、城市化、农业扩张和森林砍伐,它们的数量正在减少。相比之下,圈养老虎由于实际的保护工作而蓬勃发展。在小的圈养种群中繁殖可能会导致近交衰退和遗传瓶颈,这可能会限制保护工作的成功。尽管过去几十年进行了研究,但孟加拉国圈养和野生孟加拉虎的遗传变异综合数据库仍有待纳入。因此,这项研究旨在调查白虎的基因组,为未来的研究创建一个资源,以了解重要功能特征的基础变异。

数据描述

从吉大港动物园采集了三只白虎的血液样本。使用商业 DNA 提取试剂盒从所有收集的样本中提取基因组 DNA。使用 DNBseq 平台对全基因组进行测序。我们为三只白虎生成了 77GB 的全基因组测序 (WGS) 数据(每个样本平均 11X 覆盖度)。我们生成的数据将为孟加拉国的老虎研究建立一个范例,为未来关于孟加拉白虎的功能研究提供基因组资源。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b4dd/11155014/af1a2369e6b7/12863_2024_1239_Fig1_HTML.jpg

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