Selection and environmental adaptation along a path to speciation in the Tibetan frog Nanorana parkeri

Proceedings of the National Academy of Sciences of the United States of America
Guo-Dong WangJing Che

Abstract

Tibetan frogs, Nanorana parkeri, are differentiated genetically but not morphologically along geographical and elevational gradients in a challenging environment, presenting a unique opportunity to investigate processes leading to speciation. Analyses of whole genomes of 63 frogs reveal population structuring and historical demography, characterized by highly restricted gene flow in a narrow geographic zone lying between matrilines West (W) and East (E). A population found only along a single tributary of the Yalu Zangbu River has the mitogenome only of E, whereas nuclear genes of W comprise 89-95% of the nuclear genome. Selection accounts for 579 broadly scattered, highly divergent regions (HDRs) of the genome, which involve 365 genes. These genes fall into 51 gene ontology (GO) functional classes, 14 of which are likely to be important in driving reproductive isolation. GO enrichment analyses of E reveal many overrepresented functional categories associated with adaptation to high elevations, including blood circulation, response to hypoxia, and UV radiation. Four genes, including DNAJC8 in the brain, TNNC1 and ADORA1 in the heart, and LAMB3 in the lung, differ in levels of expression between low- and high-elevation populatio...Continue Reading

References

Jun 20, 1991·Nature·J H McDonald, M Kreitman
Oct 22, 1998·European Journal of Human Genetics : EJHG·Z RahmaniA Siddiqui
Jun 14, 2001·Trends in Ecology & Evolution·M TurelliJ A. Coyne
Apr 23, 2004·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·G M Hewitt
Feb 16, 2005·Genetic Epidemiology·Hua TangNeil J Risch
Jul 11, 2006·Vascular Pharmacology·Tamsin L Jenner, Roselyn B Rose'Meyer
Jul 28, 2007·International Journal of Cancer. Journal International Du Cancer·Nina KokkonenSakari Kellokumpu
Jan 5, 2008·Science·John H Malone, P Michalak
Apr 16, 2008·Molecular Ecology·Patrik Nosil
May 3, 2008·Evolution; International Journal of Organic Evolution·Mathias CurratLaurent Excoffier
Dec 11, 2008·Annals of Neurology·Angela M KaindlUrsula Felderhoff-Mueser
Jan 10, 2009·Nature Protocols·Da Wei HuangRichard A Lempicki
Jan 16, 2009·Molecular Ecology·Patrik NosilDaniel Ortiz-Barrientos
May 20, 2009·Bioinformatics·Heng Li, Richard Durbin
Jun 10, 2009·Bioinformatics·Heng LiUNKNOWN 1000 Genome Project Data Processing Subgroup
Jan 2, 2010·Trends in Genetics : TIG·Arne W Nolte, Diethard Tautz
May 15, 2010·Science·Tatum S SimonsonRiLi Ge
Jun 9, 2010·Systematic Biology·Liang LiuScott V Edwards
Jul 21, 2010·Proceedings of the National Academy of Sciences of the United States of America·Jing CheYa-Ping Zhang
Oct 13, 2010·BMC Evolutionary Biology·Liang LiuScott V Edwards
Nov 30, 2010·The Journal of Experimental Biology·Jay F StorzZachary A Cheviron
Dec 21, 2010·American Journal of Human Genetics·Jian YangPeter M Visscher
Jun 10, 2011·Bioinformatics·Petr DanecekUNKNOWN 1000 Genomes Project Analysis Group
Dec 28, 2011·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·Patrik Nosil, Jeffrey L Feder
Apr 7, 2012·Nature·Felicity C JonesDavid M Kingsley
Apr 24, 2012·Trends in Genetics : TIG·Jeffrey L FederPatrik Nosil
Jun 29, 2012·Molecular Ecology·David P L Toews, Alan Brelsford
Jul 4, 2012·Nature Genetics·Qiang QiuJianquan Liu
Sep 11, 2012·Genetics·Nick PattersonDavid Reich
Oct 30, 2012·Nature·Hans EllegrenJochen B W Wolf
Nov 21, 2012·PLoS Genetics·Joseph K Pickrell, Jonathan K Pritchard
May 11, 2013·Nucleic Acids Research·Timothy I ShawLiang Liu
Jun 12, 2013·PLoS Genetics·Kelley Harris, Rasmus Nielsen

❮ Previous
Next ❯

Citations

Dec 12, 2019·Molecular Biology and Evolution·Florian EhrlichLeopold Eckhart
Apr 11, 2020·Journal of Comparative Physiology. B, Biochemical, Systemic, and Environmental Physiology·Yonggang NiuQiang Chen
Jan 30, 2019·Frontiers in Immunology·Joseph F A VargaBarbara A Katzenback
Jan 17, 2020·Animal Genetics·J Friedrich, P Wiener
Oct 8, 2020·Journal of Comparative Physiology. B, Biochemical, Systemic, and Environmental Physiology·Yonggang NiuQiang Chen
Jan 20, 2020·Trends in Genetics : TIG·Hussein A HejaseAdam Siepel
Apr 30, 2021·PLoS Genetics·Kathleen G FerrisMichael W Nachman
Aug 16, 2021·Molecular Phylogenetics and Evolution·Jian-Li ZhaoQing-Jun Li
Oct 17, 2021·Molecular Phylogenetics and Evolution·Guangxiang ZhuQin Wang

❮ Previous
Next ❯

Methods Mentioned

BETA
genotyping
PCA
PCR
18
Assay

Software Mentioned

samtools mpileup
fastsimcoal2
EST
DAVID ( Database for Annotation Visualization and Integrated D...
TRACER
TreeMix
VCFtools
PhoCS
PCAdmix
MP

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.