Govindhaswamy Umapathy

ORCID: 0000-0003-4086-7445
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Research Areas
  • Wildlife Ecology and Conservation
  • Primate Behavior and Ecology
  • Animal Behavior and Welfare Studies
  • Reproductive Physiology in Livestock
  • Genomics and Phylogenetic Studies
  • Genetic diversity and population structure
  • Amphibian and Reptile Biology
  • Environmental DNA in Biodiversity Studies
  • Insect-Plant Interactions and Control
  • Microbial Community Ecology and Physiology
  • Animal Behavior and Reproduction
  • Genetic and phenotypic traits in livestock
  • Ecology and biodiversity studies
  • Silkworms and Sericulture Research
  • Identification and Quantification in Food
  • Agricultural pest management studies
  • Parasite Biology and Host Interactions
  • Fish Ecology and Management Studies
  • Animal Nutrition and Physiology
  • Sperm and Testicular Function
  • Protist diversity and phylogeny
  • Zoonotic diseases and public health
  • Fish Biology and Ecology Studies
  • Turtle Biology and Conservation
  • Bat Biology and Ecology Studies

Centre for Cellular and Molecular Biology
2015-2025

Academy of Scientific and Innovative Research
2022-2025

Tamil Nadu Agricultural University
2002-2023

Council of Scientific and Industrial Research
2021

Government of India
2007

Government of Andhra Pradesh
2007

University of Mysore
2003

Salim Ali Center for Ornithology and Natural History
2000

The rich diversity of morphology and behavior displayed across primate species provides an informative context in which to study the impact genomic on fundamental biological processes. Analysis that insight into long-standing questions evolutionary conservation biology is urgent given severe threats these are facing. Here, we present high-coverage whole-genome data from 233 representing 86% genera all 16 families. This dataset was used, together with fossil calibration, create a nuclear DNA...

10.1126/science.abn7829 article EN Science 2023-06-01
Hong Gao Tobias Hamp Jeffrey M. Ede Joshua G. Schraiber Jeremy F. McRae and 92 more Moriel Singer‐Berk Yanshen Yang Anastasia S. D. Dietrich Petko Fiziev Lukas F. K. Kuderna Laksshman Sundaram Yibing Wu Aashish N. Adhikari Yair Field Chen Chen Serafim Batzoglou François Aguet Gabrielle Lemire Rebecca Reimers Daniel J. Balick Mareike C. Janiak Martin Kuhlwilm Joseph D. Orkin Shivakumara Manu Alejandro Valenzuela Juraj Bergman Marjolaine Rousselle Felipe Ennes Silva Lídia Águeda Julie Blanc Marta Gut Dorien de Vries Ian Goodhead R. Alan Harris Muthuswamy Raveendran Axel Jensen Idriss S. Chuma Julie E. Horvath Christina Hvilsom David Juan Peter Frandsen Fabiano Rodrigues de Melo Fabrício Bertuol Hazel Byrne Iracilda Sampaio Izeni Pires Farias João Valsecchi Mariluce Rezende Messias Maria Nazareth Ferreira da Silva Mihir Trivedi Rogério Vieira Rossi Tomas Hrbek Nicole Andriaholinirina C. Rabarivola Alphonse Zaramody Clifford J. Jolly Jane E. Phillips‐Conroy Gregory K. Wilkerson Christian R. Abee Joe H. Simmons Eduardo Fernández‐Duque Sree Kanthaswamy Fekadu Shiferaw Dong‐Dong Wu Long Zhou Yong Shao Guojie Zhang Julius D. Keyyu Sascha Knauf Minh Đức Lê Esther Lizano Stefan Merker Arcadi Navarro Thomas Bataillon Tilo Nadler Chiea Chuen Khor Jessica Lee Patrick Tan Weng Khong Lim Andrew C. Kitchener Dietmar Zinner Marta Gut Amanda Melin Katerina Guschanski Mikkel Heide Schierup Robin M. D. Beck Govindhaswamy Umapathy Christian Roos Jean P. Boubli Monkol Lek Shamil Sunyaev Anne O’Donnell‐Luria Heidi L. Rehm Jinbo Xu Jeffrey Rogers Tomás Marquès‐Bonet Kyle Kai‐How Farh

Personalized genome sequencing has revealed millions of genetic differences between individuals, but our understanding their clinical relevance remains largely incomplete. To systematically decipher the effects human variants, we obtained whole-genome data for 809 individuals from 233 primate species and identified 4.3 million common protein-altering variants with orthologs in humans. We show that these can be inferred to have nondeleterious humans based on presence at high allele...

10.1126/science.abn8197 article EN Science 2023-06-01
Lukas F. K. Kuderna Jacob C. Ulirsch Sabrina Mohd Rashid Mohamed Ameen Laksshman Sundaram and 87 more Glenn Hickey Anthony J. Cox Hong Gao Arvind Kumar François Aguet Matthew J. Christmas Hiram Clawson Maximilian Haeussler Mareike C. Janiak Martin Kuhlwilm Joseph D. Orkin Thomas Bataillon Shivakumara Manu Alejandro Valenzuela Juraj Bergman Marjolaine Rouselle Felipe Ennes Silva Lídia Águeda Julie Blanc Marta Gut Dorien de Vries Ian Goodhead R. Alan Harris Muthuswamy Raveendran Axel Jensen Idriss S. Chuma Julie E. Horvath Christina Hvilsom David Juan Peter Frandsen Joshua G. Schraiber Fabiano Rodrigues de Melo Fabrício Bertuol Hazel Byrne Iracilda Sampaio Izeni Pires Farias João Valsecchi Malu Messias Maria Nazareth Ferreira da Silva Mihir Trivedi Rogério Vieira Rossi Tomas Hrbek Nicole Andriaholinirina C. Rabarivola Alphonse Zaramody Clifford J. Jolly Jane E. Phillips‐Conroy Gregory K. Wilkerson Christian R. Abee Joe H. Simmons Eduardo Fernández‐Duque Sree Kanthaswamy Fekadu Shiferaw Dong‐Dong Wu Long Zhou Yong Shao Guojie Zhang Julius D. Keyyu Sascha Knauf Minh Đức Lê Esther Lizano Stefan Merker Arcadi Navarro Tilo Nadler Chiea Chuen Khor Jessica Lee Patrick Tan Weng Khong Lim Andrew C. Kitchener Dietmar Zinner Marta Gut Amanda Melin Katerina Guschanski Mikkel Heide Schierup Robin M. D. Beck Ioannis Karakikes Ke Wang Govindhaswamy Umapathy Christian Roos Jean P. Boubli Adam Siepel Anshul Kundaje Benedict Paten Kerstin Lindblad‐Toh Jeffrey Rogers Tomás Marquès‐Bonet Kyle Kai‐How Farh

Abstract Noncoding DNA is central to our understanding of human gene regulation and complex diseases 1,2 , measuring the evolutionary sequence constraint can establish functional relevance putative regulatory elements in genome 3–9 . Identifying genomic that have become constrained specifically primates has been hampered by faster evolution noncoding compared protein-coding 10 relatively short timescales separating primate species 11 previously limited availability whole-genome sequences 12...

10.1038/s41586-023-06798-8 article EN cc-by Nature 2023-11-29

Background Understanding changes in the host-parasite relationship due to habitat fragmentation is necessary for better management and conservation of endangered species fragmented landscapes. Pathogens parasites can pose severe threat restricted environments such as forest fragments where there increased contact wildlife with human livestock populations. Environmental stress reduced nutritional level influence parasite infection intensity on native species. In this study, we examine impact...

10.1371/journal.pone.0063685 article EN cc-by PLoS ONE 2013-05-22

Tiger (Panthera tigris), an endangered species, is under severe threat from poaching, habitat loss, prey depletion and disturbance. Such factors have been reported causing local extermination of tiger populations including in one the most important reserves India, namely Sariska Reserve (STR) northwestern India. Consequently, tigers were reintroduced STR between 2008 2010, but inadequate breeding success was observed over years, thus invoking investigation to ascertain physiological...

10.1371/journal.pone.0127626 article EN cc-by PLoS ONE 2015-06-10

Livestock grazing in protected areas is considered a threat and detrimental to many wildlife species their habitats. In the current study, we examined impact of livestock on physiological stress response parasite prevalence Himalayan ibex population Spiti valley, Himalayas. We standardized cortisol enzyme immunoassay measure fecal glucocorticoid metabolites (fGCM) concentrations. A total 192 samples were collected from eight different locations ungrazed valley during 2015 2016. also examine...

10.63033/jwls.uvjz6291 article EN cc-by Journal of Wildlife Science. 2025-01-01

Ungulates living in seasonal environments adopt complex life history strategies to cope with pronounced temporal and spatial variability environmental conditions resource availability. Understanding the reproductive of slow-breeding mountain ungulates associated stress, particularly context human- climate-induced changes, is crucial devising effective long-term management conservation strategies. We investigated patterns seasonality stress hangul Kashmir Himalaya, India. used fecal...

10.1038/s41598-025-89244-1 article EN cc-by-nc-nd Scientific Reports 2025-02-10

ABSTRACT Past climate change is one of the important factors influencing primate speciation. Populations various species could have risen or declined in response to these climatic fluctuations. Northeast India harbors a rich diversity primates, where such fluctuations can be implicated. Recent advances modeling as well genomic data analysis has paved way for understanding how accumulate at particular geographic region. We utilized methods explore this unique region relation past change. To...

10.1002/ece3.70968 article EN cc-by Ecology and Evolution 2025-02-01

Air-breathing catfishes of the family Clariidae exhibit extraordinary adaptations that enable them to survive outside water for extended periods, yet genetic and genomic basis these remain poorly understood. To study adaptations, we sequenced assembled two high-quality genomes clariid species, Clarias gariepinus dussumieri compare with previously available 23 catfish species across nine families. By reconstructing whole-genome phylogeny examining patterns positive selection gene evolution,...

10.1101/2025.03.20.644309 preprint EN bioRxiv (Cold Spring Harbor Laboratory) 2025-03-25

Cyanobacteria play vital roles in aquatic ecosystems by driving photosynthesis, nitrogen fixation, carbon sequestration, and forming symbiotic relationships with diverse organisms. However, their proliferation can trigger harmful algal blooms, posing risks to biodiversity public health. Despite ecological significance, the interplay between cyanobacterial genomic traits ecosystem dynamics remains poorly resolved. Here, we employed culture-independent metagenomic approaches reconstruct...

10.1101/2025.04.10.648224 preprint EN bioRxiv (Cold Spring Harbor Laboratory) 2025-04-10

Tigers continue to face unprecedented threats their existence due poaching, habitat loss, fragmentation and anthropogenic disturbances. The present study examines the physiological stress response of tigers activities including wildlife tourism in Bandhavgarh Tiger Reserve Kanha using faecal glucocorticoid metabolite (fGCM) measurement. We collected a total 341 samples from both reserves during non-tourism periods. Data on various disturbances like number vehicles visitors were also...

10.1093/conphys/coz045 article EN cc-by Conservation Physiology 2019-01-01

India, the country with largest population of dairy cows in world, has a policy retiring abandoned and non-lactating shelters, but level provision for their welfare these shelters is unclear. Cows 54 across India were assessed historic evidence physiological stress, through determination hair cortisol 540 samples from 10 each shelter by enzyme immunoassay. Animal-based resource-based measures recorded correlations investigated multivariable analysis. High concentrations associated dung lying...

10.3390/ani9050248 article EN cc-by Animals 2019-05-16
Hong Gao Tobias Hamp Jeffrey M. Ede Joshua G. Schraiber Jeremy F. McRae and 92 more Moriel Singer‐Berk Yanshen Yang Anastasia Dietrich Petko Fiziev Lukas F. K. Kuderna Laksshman Sundaram Yibing Wu Aashish N. Adhikari Yair Field Chen Chen Serafim Batzoglou François Aguet Gabrielle Lemire Rebecca Reimers Daniel J. Balick Mareike C. Janiak Martin Kuhlwilm Joseph D. Orkin Shivakumara Manu Alejandro Valenzuela Juraj Bergman Marjolaine Rouselle Felipe Ennes Silva Lídia Águeda Julie Blanc Marta Gut Dorien de Vries Ian Goodhead R. Alan Harris Muthuswamy Raveendran Axel Jensen Idriss S. Chuma Julie E. Horvath Christina Hvilsom David Juan Peter Frandsen Fabiano Rodrigues de Melo Fabrício Bertuol Hazel Byrne Iracilda Sampaio Izeni Pires Farias João Valsecchi Mariluce Rezende Messias Maria Nazareth Ferreira da Silva Mihir Trivedi Rogério Vieira Rossi Tomas Hrbek Nicole Andriaholinirina C. Rabarivola Alphonse Zaramody Clifford J. Jolly Jane E. Phillips‐Conroy Gregory K. Wilkerson Christian R. Abee Joe H. Simmons Eduardo Fernández‐Duque ee Kanthaswamy Fekadu Shiferaw Dong‐Dong Wu Long Zhou Yong Shao Guojie Zhang Julius D. Keyyu Sascha Knauf Minh Đức Lê Esther Lizano Stefan Merker Arcadi Navarro Thomas Batallion Tilo Nadler Chiea Chuen Khor Jessica Lee Patrick Tan Weng Khong Lim Andrew C. Kitchener Dietmar Zinner Marta Gut Amanda Melin Katerina Guschanski Mikkel Heide Schierup Robin M. D. Beck Govindhaswamy Umapathy Christian Roos Jean P. Boubli Monkol Lek Shamil Sunyaev Anne O’Donnell‐Luria Heidi L. Rehm Jinbo Xu Jeffrey Rogers Tomás Marquès‐Bonet Kyle Kai‐How Farh

Personalized genome sequencing has revealed millions of genetic differences between individuals, but our understanding their clinical relevance remains largely incomplete. To systematically decipher the effects human variants, we obtained whole data for 809 individuals from 233 primate species, and identified 4.3 million common protein-altering variants with orthologs in human. We show that these can be inferred to have non-deleterious based on presence at high allele frequencies other...

10.1101/2023.05.01.538953 preprint EN cc-by-nc-nd bioRxiv (Cold Spring Harbor Laboratory) 2023-05-02

Genetic isolation of populations is a potent force that helps shape the course evolution. However, small in isolation, especially fragmented landscapes, are known to lose genetic variability, suffer from inbreeding depression and become genetically differentiated among themselves. In this study, we assessed diversity lion-tailed macaques (Macaca silenus) inhabiting landscape Anamalai hills examined structure species across its distributional range Western Ghats. We sequenced around 900 bases...

10.1371/journal.pone.0142597 article EN cc-by PLoS ONE 2015-11-11

Asian elephant (Elephas maximus) populations, both in the wild and captivity, have been continually declining over decades. The present study examined physiological stress response of captive elephants relation to body condition score different working conditions. A total 870 dung samples 37 (24 males 13 females) from four facilities were collected examine fecal glucocorticoid metabolite concentrations (fGCM). forest camps with exposure natural habitats had a higher than those more confined...

10.3390/ani9080553 article EN cc-by Animals 2019-08-14

The present paper describes, to our knowledge for the first time, successful collection and evaluation of semen from Indian white-backed vulture (Gyps bengalensis), a critically endangered bird. Over period 2 yr, was collected using manual massage method evaluated volume, pH, sperm concentration, percentage normal/abnormal spermatozoa, motile spermatozoa. It appears that concentration spermatozoa in vultures are low compared those other birds. Tyrode medium supplemented with albumin,...

10.1095/biolreprod.105.043430 article EN Biology of Reproduction 2005-07-20
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