Suvorov Lab

Publication list

2022

Reliable estimation of tree branch lengths using deep neural networks
Reliable estimation of tree branch lengths using deep neural networks
Anton Suvorov, Daniel R. Schrider
Cold Spring Harbor Laboratory   ·   08 Nov 2022   ·   doi:10.1101/2022.11.07.515518
Evolution and development of male-specific leg brushes in Drosophilidae
Evolution and development of male-specific leg brushes in Drosophilidae
Kohtaro Tanaka, Olga Barmina, Ammon Thompson, Jonathan H. Massey, Bernard Y. Kim, Anton Suvorov, Artyom Kopp
Cold Spring Harbor Laboratory   ·   08 Aug 2022   ·   doi:10.1101/786764
Secondary reversion to sexual monomorphism associated with tissue‐specific loss of <i>doublesex</i> expression
Secondary reversion to sexual monomorphism associated with tissue‐specific loss of doublesex expression
Jian‐jun Gao, Olga Barmina, Ammon Thompson, Bernard Y. Kim, Anton Suvorov, ..., Hideaki Watabe, Masanori J. Toda, Ji‐Min Chen, Takehiro K. Katoh, Artyom Kopp
Evolution   ·   23 Jul 2022   ·   doi:10.1111/evo.14564
The evolutionary trajectory of drosophilid walking
The evolutionary trajectory of drosophilid walking
Ryan A. York, Luke E. Brezovec, Jenn Coughlan, Steven Herbst, Avery Krieger, ..., Eugene Song, Anton Suvorov, Daniel R. Matute, John C. Tuthill, Thomas R. Clandinin
Current Biology   ·   01 Jul 2022   ·   doi:10.1016/j.cub.2022.05.039
Widespread introgression across a phylogeny of 155 Drosophila genomes
Widespread introgression across a phylogeny of 155 Drosophila genomes
Anton Suvorov, Bernard Y. Kim, Jeremy Wang, Ellie E. Armstrong, David Peede, ..., Jean R. David, Dmitri Petrov, Daniel R. Matute, Daniel R. Schrider, Aaron A. Comeault
Current Biology   ·   01 Jan 2022   ·   doi:10.1016/j.cub.2021.10.052

2021

Deep Ancestral Introgression Shapes Evolutionary History of Dragonflies and Damselflies
Deep Ancestral Introgression Shapes Evolutionary History of Dragonflies and Damselflies
Anton Suvorov, Celine Scornavacca, M Stanley Fujimoto, Paul Bodily, Mark Clement, Keith A Crandall, Michael F Whiting, Daniel R Schrider, Seth M Bybee
Systematic Biology   ·   29 Jul 2021   ·   doi:10.1093/sysbio/syab063

2020

Genome analysis of <i>Plectus murrayi</i>, a nematode from continental Antarctica
Genome analysis of Plectus murrayi, a nematode from continental Antarctica
Xia Xue, Anton Suvorov, Stanley Fujimoto, Adler R Dilman, Byron J Adams
G3 Genes|Genomes|Genetics   ·   22 Dec 2020   ·   doi:10.1093/g3journal/jkaa045
Gut microbial diversity across a contact zone for California voles: Implications for lineage divergence of hosts and mitonuclear mismatch in the assembly of the mammalian gut microbiome
Gut microbial diversity across a contact zone for California voles: Implications for lineage divergence of hosts and mitonuclear mismatch in the assembly of the mammalian gut microbiome
Dana Lin, Eileen A. Lacey, Bryan H. Bach, Ke Bi, Christopher J. Conroy, Anton Suvorov, Rauri C. K. Bowie
Molecular Ecology   ·   01 May 2020   ·   doi:10.1111/mec.15443

2019

Accurate Inference of Tree Topologies from Multiple Sequence Alignments Using Deep Learning
Accurate Inference of Tree Topologies from Multiple Sequence Alignments Using Deep Learning
Anton Suvorov, Joshua Hochuli, Daniel R Schrider
Systematic Biology   ·   03 Sep 2019   ·   doi:10.1093/sysbio/syz060

2018

Odonata (dragonflies and damselflies) as a bridge between ecology and evolutionary genomics.
Odonata (dragonflies and damselflies) as a bridge between ecology and evolutionary genomics.
Seth Bybee, Alex Córdoba-Aguilar, M Catherine Duryea, Ryo Futahashi, Bengt Hansson, ..., Erik I Svensson, Janne Swaegers, Yuma Takahashi, Phillip C Watts, Maren Wellenreuther
Frontiers in zoology   ·   15 Apr 2018   ·   pmc:PMC5057408

2017

Overcoming the loss of blue sensitivity through opsin duplication in the largest animal group, beetles
Overcoming the loss of blue sensitivity through opsin duplication in the largest animal group, beetles
Camilla R. Sharkey, M. Stanley Fujimoto, Nathan P. Lord, Seunggwan Shin, Duane D. McKenna, Anton Suvorov, Gavin J. Martin, Seth M. Bybee
Scientific Reports   ·   31 Jan 2017   ·   doi:10.1038/s41598-017-00061-7

2016

Opsins have evolved under the permanent heterozygote model: insights from phylotranscriptomics of Odonata
Opsins have evolved under the permanent heterozygote model: insights from phylotranscriptomics of Odonata
Anton Suvorov, Nicholas O. Jensen, Camilla R. Sharkey, M. Stanley Fujimoto, Paul Bodily, Haley M. Cahill Wightman, T. Heath Ogden, Mark J. Clement, Seth M. Bybee
Molecular Ecology   ·   05 Nov 2016   ·   doi:10.1111/mec.13884
The OGCleaner: filtering false-positive homology clusters
The OGCleaner: filtering false-positive homology clusters
M Stanley Fujimoto, Anton Suvorov, Nicholas O Jensen, Mark J Clement, Quinn Snell, Seth M Bybee
Bioinformatics   ·   10 Sep 2016   ·   doi:10.1093/bioinformatics/btw571
A cure for the blues: opsin duplication and subfunctionalization for short-wavelength sensitivity in jewel beetles (Coleoptera: Buprestidae)
A cure for the blues: opsin duplication and subfunctionalization for short-wavelength sensitivity in jewel beetles (Coleoptera: Buprestidae)
Nathan P. Lord, Rebecca L. Plimpton, Camilla R. Sharkey, Anton Suvorov, Jonathan P. Lelito, Barry M. Willardson, Seth M. Bybee
BMC Evolutionary Biology   ·   18 May 2016   ·   doi:10.1186/s12862-016-0674-4
Detecting false positive sequence homology: a machine learning approach
Detecting false positive sequence homology: a machine learning approach
M. Stanley Fujimoto, Anton Suvorov, Nicholas O. Jensen, Mark J. Clement, Seth M. Bybee
BMC Bioinformatics   ·   24 Feb 2016   ·   doi:10.1186/s12859-016-0955-3
Reinventing the leaf: multiple origins of leaf-like wings in katydids (Orthoptera : Tettigoniidae)
Reinventing the leaf: multiple origins of leaf-like wings in katydids (Orthoptera : Tettigoniidae)
Joseph Mugleston, Michael Naegle, Hojun Song, Seth M. Bybee, Spencer Ingley, Anton Suvorov, Michael F. Whiting
Invertebrate Systematics   ·   01 Jan 2016   ·   doi:10.1071/IS15055

2014

DNA barcoding of Palaearctic Ulidiidae (Diptera: Tephritoidea): morphology, DNA evolution, and Markov codon models
DNA barcoding of Palaearctic Ulidiidae (Diptera: Tephritoidea): morphology, DNA evolution, and Markov codon models
Tatiana V Galinskaya, Anton Suvorov, Mikhail V Okun, Anatole I Shatalkin
Zoological Studies   ·   20 Aug 2014   ·   doi:10.1186/s40555-014-0051-1

2013

Intra-Specific Regulatory Variation in Drosophila pseudoobscura
Intra-Specific Regulatory Variation in Drosophila pseudoobscura
Anton Suvorov, Viola Nolte, Ram Vinay Pandey, Susanne U. Franssen, Andreas Futschik, Christian Schlötterer
PLoS ONE   ·   27 Dec 2013   ·   doi:10.1371/journal.pone.0083547

2012

Evaluation of Different Reference Based Annotation Strategies Using RNA-Seq – A Case Study in Drososphila pseudoobscura
Evaluation of Different Reference Based Annotation Strategies Using RNA-Seq – A Case Study in Drososphila pseudoobscura
Nicola Palmieri, Viola Nolte, Anton Suvorov, Carolin Kosiol, Christian Schlötterer
PLoS ONE   ·   03 Oct 2012   ·   doi:10.1371/journal.pone.0046415

2011

Comparative molecular genetics of Nehalennia speciosa (Charpentier) from geographically distant populations (Zygoptera: Coenagrionidae)
Comparative molecular genetics of Nehalennia speciosa (Charpentier) from geographically distant populations (Zygoptera: Coenagrionidae)
[no author info]
Odonatologica   ·   26 May 2011   ·   eid:2-s2.0-79958822534