TY  - JOUR
A1  - Linard, Benjamin
A1  - Ebersberger, Ingo
A1  - McGlynn, Shawn E.
A1  - Glover, Natasha
A1  - Mochizuki, Tomohiro
A1  - Patricio, Mateus
A1  - Lecompte, Odile
A1  - Nevers, Yannis
A1  - Thomas, Paul D.
A1  - Gabaldón, Toni
A1  - Sonnhammer, Erik
A1  - Dessimoz, Christophe
A1  - Uchiyama, Ikuo
T1  - Ten years of collaborative prqogress in the quest for orthologs
T2  - Molecular biology and evolution
N2  - Accurate determination of the evolutionary relationships between genes is a foundational challenge in biology. Homology—evolutionary relatedness—is in many cases readily determined based on sequence similarity analysis. By contrast, whether or not two genes directly descended from a common ancestor by a speciation event (orthologs) or duplication event (paralogs) is more challenging, yet provides critical information on the history of a gene. Since 2009, this task has been the focus of the Quest for Orthologs (QFO) Consortium. The sixth QFO meeting took place in Okazaki, Japan in conjunction with the 67th National Institute for Basic Biology conference. Here, we report recent advances, applications, and oncoming challenges that were discussed during the conference. Steady progress has been made toward standardization and scalability of new and existing tools. A feature of the conference was the presentation of a panel of accessible tools for phylogenetic profiling and several developments to bring orthology beyond the gene unit—from domains to networks. This meeting brought into light several challenges to come: leveraging orthology computations to get the most of the incoming avalanche of genomic data, integrating orthology from domain to biological network levels, building better gene models, and adapting orthology approaches to the broad evolutionary and genomic diversity recognized in different forms of life and viruses.
KW  - orthology
KW  - viruses
KW  - phylogenetic profiling
KW  - paralogy
KW  - xenology
KW  - gene models
Y1  - 2021
UR  - http://publikationen.ub.uni-frankfurt.de/frontdoor/index/index/docId/63303
UR  - https://nbn-resolving.org/urn:nbn:de:hebis:30:3-633030
SN  - 1537-1719
N1  - We wish to acknowledge the following support for attending the meetings and/or writing this manuscript: EMBO Young Investigator meeting grant (to C.D.). Service and Infrastructure grant from the Swiss Institute of Bioinformatics, Swiss National Science Foundation [183723] (to C.D.); IdEX Unistra in the framework of the Investments for the future program of the French government (to O.L. and Y.N.); NSF (Award No. 1724300), KAKENHI (Grant No. JP18H01325) (to S.E.M.); support by the research funding program Landes-Offensive zur Entwicklung Wissenschaftlich-ökonomischer Exzellenz(LOEWE)of the State of Hessen, Research Center for Translational Biodiversity Genomics (TBG) (to I.E.); funding from the Wellcome Trust (108749/Z/15/Z) and the European Molecular Biology Laboratory (to M.P.); National Human Genome Research Institute, National Institutes of Health NIH (grant no. U41HG002273), National Science Foundation NSF (award no. 1917302) (to P.D.T.); Japan Society for the Promotion of Science (16H06279 and 19F19089) (to W.I. and S.C.).
VL  - 38.2021
IS  - 8
SP  - 3033
EP  - 3045
PB  - Oxford Univ. Press
CY  - Oxford
ER  -