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Near-chromosomal de novo assembly of Bengal tiger genome reveals genetic hallmarks of apex predation.
Shukla, Harsh; Suryamohan, Kushal; Khan, Anubhab; Mohan, Krishna; Perumal, Rajadurai C; Mathew, Oommen K; Menon, Ramesh; Dixon, Mandumpala Davis; Muraleedharan, Megha; Kuriakose, Boney; Michael, Saju; Krishnankutty, Sajesh P; Zachariah, Arun; Seshagiri, Somasekar; Ramakrishnan, Uma.
Afiliação
  • Shukla H; National Centre for Biological Sciences, Tata Institute of Fundamental Research, Bangalore 560065, India.
  • Suryamohan K; MedGenome Inc., Department of Research and Development, Foster City, CA 94404, USA.
  • Khan A; SciGenom Research Foundation, Narayana Health City, Bangalore, Karnataka 560099, India.
  • Mohan K; National Centre for Biological Sciences, Tata Institute of Fundamental Research, Bangalore 560065, India.
  • Perumal RC; Department of Research and Development, AgriGenome Labs Private Ltd, Kochi, Kerala 682030, India.
  • Mathew OK; Department of Research and Development, AgriGenome Labs Private Ltd, Kochi, Kerala 682030, India.
  • Menon R; Department of Research and Development, AgriGenome Labs Private Ltd, Kochi, Kerala 682030, India.
  • Dixon MD; MedGenome Labs Ltd., Narayana Health City, Bangalore, Karnataka 560099, India.
  • Muraleedharan M; Department of Research and Development, AgriGenome Labs Private Ltd, Kochi, Kerala 682030, India.
  • Kuriakose B; Department of Research and Development, AgriGenome Labs Private Ltd, Kochi, Kerala 682030, India.
  • Michael S; Department of Research and Development, AgriGenome Labs Private Ltd, Kochi, Kerala 682030, India.
  • Krishnankutty SP; Department of Research and Development, AgriGenome Labs Private Ltd, Kochi, Kerala 682030, India.
  • Zachariah A; Department of Research and Development, AgriGenome Labs Private Ltd, Kochi, Kerala 682030, India.
  • Seshagiri S; SciGenom Research Foundation, Narayana Health City, Bangalore, Karnataka 560099, India.
  • Ramakrishnan U; Wayanad Wildlife Sanctuary, Sultan Bathery, Kerala 673592, India.
Gigascience ; 122022 12 28.
Article em En | MEDLINE | ID: mdl-36576130
The tiger, a poster child for conservation, remains an endangered apex predator. Continued survival and recovery will require a comprehensive understanding of genetic diversity and the use of such information for population management. A high-quality tiger genome assembly will be an important tool for conservation genetics, especially for the Indian tiger, the most abundant subspecies in the wild. Here, we present high-quality near-chromosomal genome assemblies of a female and a male wild Indian tiger (Panthera tigris tigris). Our assemblies had a scaffold N50 of >140 Mb, with 19 scaffolds corresponding to the 19 numbered chromosomes, containing 95% of the genome. Our assemblies also enabled detection of longer stretches of runs of homozygosity compared to previous assemblies, which will help improve estimates of genomic inbreeding. Comprehensive genome annotation identified 26,068 protein-coding genes, including several gene families involved in key morphological features such as the teeth, claws, vision, olfaction, taste, and body stripes. We also identified 301 microRNAs, 365 small nucleolar RNAs, 632 transfer RNAs, and other noncoding RNA elements, several of which are predicted to regulate key biological pathways that likely contribute to the tiger's apex predatory traits. We identify signatures of positive selection in the tiger genome that are consistent with the Panthera lineage. Our high-quality genome will enable use of noninvasive samples for comprehensive assessment of genetic diversity, thus supporting effective conservation and management of wild tiger populations.
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Texto completo: 1 Base de dados: MEDLINE Assunto principal: Comportamento Predatório / Tigres Idioma: En Ano de publicação: 2022 Tipo de documento: Article

Texto completo: 1 Base de dados: MEDLINE Assunto principal: Comportamento Predatório / Tigres Idioma: En Ano de publicação: 2022 Tipo de documento: Article