{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,25]],"date-time":"2026-02-25T22:58:14Z","timestamp":1772060294078,"version":"3.50.1"},"reference-count":79,"publisher":"Oxford University Press (OUP)","issue":"12","license":[{"start":{"date-parts":[[2020,7,28]],"date-time":"2020-07-28T00:00:00Z","timestamp":1595894400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"DOI":"10.13039\/501100001807","name":"Funda\u00e7\u00e3o de Amparo \u00e0 Pesquisa do Estado de S\u00e3o Paulo","doi-asserted-by":"publisher","award":["2016\/50127-5"],"award-info":[{"award-number":["2016\/50127-5"]}],"id":[{"id":"10.13039\/501100001807","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001807","name":"Funda\u00e7\u00e3o de Amparo \u00e0 Pesquisa do Estado de S\u00e3o Paulo","doi-asserted-by":"publisher","award":["2013\/07467-1"],"award-info":[{"award-number":["2013\/07467-1"]}],"id":[{"id":"10.13039\/501100001807","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001807","name":"Funda\u00e7\u00e3o de Amparo \u00e0 Pesquisa do Estado de S\u00e3o Paulo","doi-asserted-by":"publisher","award":["2017\/24498-9"],"award-info":[{"award-number":["2017\/24498-9"]}],"id":[{"id":"10.13039\/501100001807","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001807","name":"Funda\u00e7\u00e3o de Amparo \u00e0 Pesquisa do Estado de S\u00e3o Paulo","doi-asserted-by":"publisher","award":["2017\/24546-3"],"award-info":[{"award-number":["2017\/24546-3"]}],"id":[{"id":"10.13039\/501100001807","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000001","name":"National Science Foundation","doi-asserted-by":"publisher","award":["DEB 1638879"],"award-info":[{"award-number":["DEB 1638879"]}],"id":[{"id":"10.13039\/100000001","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000001","name":"National Science Foundation","doi-asserted-by":"publisher","award":["DEB 1822417"],"award-info":[{"award-number":["DEB 1822417"]}],"id":[{"id":"10.13039\/100000001","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Conselho Nacional de Desenvolvimento Cient","award":["309791\/2017-0"],"award-info":[{"award-number":["309791\/2017-0"]}]},{"name":"Conselho Nacional de Desenvolvimento Cient","award":["303958\/2018-9"],"award-info":[{"award-number":["303958\/2018-9"]}]},{"name":"Funda\u00e7\u00e3o de Amparo \u00e0 Pesquisa do Estado do Amazonas-FAPEAM"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2020,12,16]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Novel phenotypes are commonly associated with gene duplications and neofunctionalization, less documented are the cases of phenotypic maintenance through the recruitment of novel genes. Proteolysis is the primary toxic character of many snake venoms, and ADAM metalloproteinases, named snake venom metalloproteinases (SVMPs), are largely recognized as the major effectors of this phenotype. However, by investigating original transcriptomes from 58 species of advanced snakes (Caenophidia) across their phylogeny, we discovered that a different enzyme, matrix metalloproteinase (MMP), is actually the dominant venom component in three tribes (Tachymenini, Xenodontini, and Conophiini) of rear-fanged snakes (Dipsadidae). Proteomic and functional analyses of these venoms further indicate that MMPs are likely playing an \u201cSVMP-like\u201d function in the proteolytic phenotype. A detailed look into the venom-specific sequences revealed a new highly expressed MMP subtype, named snake venom MMP (svMMP), which originated independently on at least three occasions from an endogenous MMP-9. We further show that by losing ancillary noncatalytic domains present in its ancestors, svMMPs followed an evolutionary path toward a simplified structure during their expansion in the genomes, thus paralleling what has been proposed for the evolution of their Viperidae counterparts, the SVMPs. Moreover, we inferred an inverse relationship between the expression of svMMPs and SVMPs along the evolutionary history of Xenodontinae, pointing out that one type of enzyme may be substituting for the other, whereas the general (metallo)proteolytic phenotype is maintained. These results provide rare evidence on how relevant phenotypic traits can be optimized via natural selection on nonhomologous genes, yielding alternate biochemical components.<\/jats:p>","DOI":"10.1093\/molbev\/msaa192","type":"journal-article","created":{"date-parts":[[2020,7,22]],"date-time":"2020-07-22T19:15:30Z","timestamp":1595445330000},"page":"3563-3575","source":"Crossref","is-referenced-by-count":25,"title":["Replacement and Parallel Simplification of Nonhomologous Proteinases Maintain Venom Phenotypes in Rear-Fanged Snakes"],"prefix":"10.1093","volume":"37","author":[{"given":"Juan David","family":"Bayona-Serrano","sequence":"first","affiliation":[{"name":"Laborat\u00f3rio Especial de Toxinologia Aplicada, Instituto Butantan, S\u00e3o Paulo, Brazil"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Vincent Louis","family":"Viala","sequence":"additional","affiliation":[{"name":"Laborat\u00f3rio Especial de Toxinologia Aplicada, Instituto Butantan, S\u00e3o Paulo, Brazil"},{"name":"Center of Toxins, Immune-Response and Cell Signaling (CeTICS), S\u00e3o Paulo, Brazil"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Rhett M","family":"Rautsaw","sequence":"additional","affiliation":[{"name":"Department of Biological Sciences, Clemson University, Clemson, SC"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Tristan D","family":"Schramer","sequence":"additional","affiliation":[{"name":"Department of Biological Sciences, Clemson University, Clemson, SC"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Gesiele A","family":"Barros-Carvalho","sequence":"additional","affiliation":[{"name":"Laborat\u00f3rio Especial de Toxinologia Aplicada, Instituto Butantan, S\u00e3o Paulo, Brazil"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"suffix":"Jr,","given":"Milton Yutaka","family":"Nishiyama","sequence":"additional","affiliation":[{"name":"Laborat\u00f3rio Especial de Toxinologia Aplicada, Instituto Butantan, S\u00e3o Paulo, Brazil"},{"name":"Center of Toxins, Immune-Response and Cell Signaling (CeTICS), S\u00e3o Paulo, Brazil"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Luciana A","family":"Freitas-de-Sousa","sequence":"additional","affiliation":[{"name":"Laborat\u00f3rio de Imunopatologia, Instituto Butantan, S\u00e3o Paulo, Brazil"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ana Maria","family":"Moura-da-Silva","sequence":"additional","affiliation":[{"name":"Laborat\u00f3rio de Imunopatologia, Instituto Butantan, S\u00e3o Paulo, Brazil"},{"name":"Instituto de Pesquisa Cl\u00ednica Carlos Borborema, Funda\u00e7\u00e3o de Medicina Tropical Dr. Heitor Vieira Dourado, Manaus, Brazil"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2020-6992","authenticated-orcid":false,"given":"Christopher L","family":"Parkinson","sequence":"additional","affiliation":[{"name":"Department of Biological Sciences, Clemson University, Clemson, SC"},{"name":"Department of Forestry and Environmental Conservation, Clemson University, Clemson, SC"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Felipe Gobbi","family":"Grazziotin","sequence":"additional","affiliation":[{"name":"Laborat\u00f3rio de Cole\u00e7\u00f5es Zool\u00f3gicas, Instituto Butantan, S\u00e3o Paulo, Brazil"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4491-0180","authenticated-orcid":false,"given":"In\u00e1cio L M","family":"Junqueira-de-Azevedo","sequence":"additional","affiliation":[{"name":"Laborat\u00f3rio Especial de Toxinologia Aplicada, Instituto Butantan, S\u00e3o Paulo, Brazil"},{"name":"Center of Toxins, Immune-Response and Cell Signaling (CeTICS), S\u00e3o Paulo, Brazil"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2020,7,28]]},"reference":[{"issue":"8","key":"2021072800102512000_msaa192-B1","doi-asserted-by":"crossref","first-page":"1007","DOI":"10.1016\/S0041-0101(03)00074-6","article-title":"Hemorrhagic activity of the Duvernoy\u2019s gland secretion of the xenodontine colubrid Philodryas patagoniensis from the north-east region of Argentina","volume":"41","author":"Acosta","year":"2003","journal-title":"Toxicon"},{"key":"2021072800102512000_msaa192-B2","doi-asserted-by":"crossref","first-page":"352","DOI":"10.1016\/j.gdata.2015.07.012","article-title":"Ameliorated de novo transcriptome assembly using Illumina paired end sequence data with Trinity Assembler","volume":"5","author":"Bankar","year":"2015","journal-title":"Genomics Data"},{"issue":"9","key":"2021072800102512000_msaa192-B3","doi-asserted-by":"crossref","first-page":"1964","DOI":"10.1093\/molbev\/msz125","article-title":"Many options, few solutions: over 60 My snakes converged on a few optimal venom formulations","volume":"36","author":"Barua","year":"2019","journal-title":"Mol Biol Evol"},{"issue":"3","key":"2021072800102512000_msaa192-B4","doi-asserted-by":"crossref","first-page":"651","DOI":"10.1074\/mcp.M112.023135","article-title":"Differential evolution and neofunctionalization of snake venom metalloprotease domains","volume":"12","author":"Brust","year":"2013","journal-title":"Mol Cell Proteomics"},{"key":"2021072800102512000_msaa192-B5","doi-asserted-by":"crossref","first-page":"179","DOI":"10.1186\/s12862-015-0450-x","article-title":"ERK1 and ERK2 present functional redundancy in tetrapods despite higher evolution rate of ERK1","volume":"15","author":"Busc\u00e0","year":"2015","journal-title":"BMC Evol Biol"},{"issue":"9","key":"2021072800102512000_msaa192-B6","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1093\/gigascience\/giz100","article-title":"RnaSPAdes: a de novo transcriptome assembler and its application to RNA-Seq data","volume":"8","author":"Bushmanova","year":"2019","journal-title":"Gigascience"},{"issue":"8","key":"2021072800102512000_msaa192-B7","doi-asserted-by":"crossref","first-page":"2266","DOI":"10.1093\/gbe\/evw149","article-title":"Trends in the evolution of snake toxins underscored by an integrative omics approach to profile the venom of the colubrid Phalotris mertensi","volume":"8","author":"Campos","year":"2016","journal-title":"Genome Biol Evol"},{"issue":"9","key":"2021072800102512000_msaa192-B8","doi-asserted-by":"crossref","first-page":"2637","DOI":"10.1093\/molbev\/msr091","article-title":"Domain loss facilitates accelerated evolution and neofunctionalization of duplicate snake venom metalloproteinase toxin genes","volume":"28","author":"Casewell","year":"2011","journal-title":"Mol Biol Evol"},{"issue":"1","key":"2021072800102512000_msaa192-B9","doi-asserted-by":"crossref","first-page":"30","DOI":"10.1186\/s13059-015-0596-2","article-title":"Bridger: a new framework for de novo transcriptome assembly using RNA-seq data","volume":"16","author":"Chang","year":"2015","journal-title":"Genome Biol"},{"issue":"8","key":"2021072800102512000_msaa192-B10","doi-asserted-by":"crossref","first-page":"1519","DOI":"10.1242\/dev.124.8.1519","article-title":"Matrix metalloproteinases regulate morphogenesis, migration and remodeling of epithelium, tongue skeletal muscle and cartilage in the mandibular arch","volume":"124","author":"Chin","year":"1997","journal-title":"Development"},{"issue":"2","key":"2021072800102512000_msaa192-B11","doi-asserted-by":"crossref","first-page":"1152","DOI":"10.1021\/pr200876c","article-title":"Venomics profiling of Thamnodynastes strigatus unveils matrix metalloproteinases and other novel proteins recruited to the toxin arsenal of rear-fanged snakes","volume":"11","author":"Ching","year":"2012","journal-title":"J Proteome Res"},{"issue":"18","key":"2021072800102512000_msaa192-B12","doi-asserted-by":"crossref","first-page":"4417","DOI":"10.1016\/j.febslet.2006.07.010","article-title":"Some aspects of the venom proteome of the Colubridae snake Philodryas olfersii revealed from a Duvernoy\u2019s (venom) gland transcriptome","volume":"580","author":"Ching","year":"2006","journal-title":"FEBS Lett"},{"issue":"1","key":"2021072800102512000_msaa192-B13","doi-asserted-by":"crossref","first-page":"156","DOI":"10.1006\/abio.1987.9999","article-title":"Single-step method of RNA isolation by acid guanidinium thiocyanate\u2013phenol\u2013chloroform extraction","volume":"162","author":"Chomzynski","year":"1987","journal-title":"Anal Biochem"},{"issue":"15","key":"2021072800102512000_msaa192-B14","doi-asserted-by":"crossref","first-page":"3020","DOI":"10.1038\/sj.emboj.7600318","article-title":"Collagenase unwinds triple-helical collagen prior to peptide bond hydrolysis","volume":"23","author":"Chung","year":"2004","journal-title":"EMBO J"},{"issue":"2","key":"2021072800102512000_msaa192-B15","doi-asserted-by":"crossref","first-page":"410","DOI":"10.1590\/S0101-81752007000200019","article-title":"Analysis of biological activities from Philodryas olfersii (Lichtenstein) and P.\u00a0patagoniensis (Girard) venoms (Serpentes, Colubridae)","volume":"24","author":"Da Rocha","year":"2007","journal-title":"Rev Bras Zool"},{"issue":"6","key":"2021072800102512000_msaa192-B16","doi-asserted-by":"crossref","first-page":"517","DOI":"10.1590\/S0037-86821997000600013","article-title":"Cases of human envenoming caused by Philodryas olfersii and Philodryas patagoniensis (Serpentes: Colubridae)","volume":"30","author":"de Ara\u00fajo","year":"1997","journal-title":"Rev Soc Bras Med Trop"},{"key":"2021072800102512000_msaa192-B17","doi-asserted-by":"crossref","first-page":"113","DOI":"10.1186\/1471-2105-5-113","article-title":"MUSCLE: a multiple sequence alignment method with reduced time and space complexity","volume":"5","author":"Edgar","year":"2004","journal-title":"BMC Bioinformatics"},{"issue":"7","key":"2021072800102512000_msaa192-B18","doi-asserted-by":"crossref","first-page":"1182","DOI":"10.1107\/S0907444902007849","article-title":"Structure of the C-terminally truncated human ProMMP9, a gelatin-binding matrix metalloproteinase","volume":"58","author":"Elkins","year":"2002","journal-title":"Acta Crystallogr D Biol Crystallogr"},{"issue":"1","key":"2021072800102512000_msaa192-B19","doi-asserted-by":"crossref","first-page":"3","DOI":"10.1016\/j.bbamcr.2009.07.004","article-title":"Matrix metalloproteinases: evolution, gene regulation and functional analysis in mouse models","volume":"1803","author":"Fanjul-Fern\u00e1ndez","year":"2010","journal-title":"Biochim Biophys Acta Mol Cell Res"},{"issue":"4","key":"2021072800102512000_msaa192-B20","doi-asserted-by":"crossref","first-page":"909","DOI":"10.1002\/pmic.200700777","article-title":"Exploring snake venom proteomes: multifaceted analyses for complex toxin mixtures","volume":"8","author":"Fox","year":"2008","journal-title":"Proteomics"},{"issue":"2","key":"2021072800102512000_msaa192-B21","doi-asserted-by":"crossref","first-page":"215","DOI":"10.1074\/mcp.M700094-MCP200","article-title":"Evolution of an arsenal: structural and functional diversification of the venom system in the advanced snakes (Caenophidia)","volume":"7","author":"Fry","year":"2008","journal-title":"Mol Cell Proteomics"},{"issue":"23","key":"2021072800102512000_msaa192-B22","doi-asserted-by":"crossref","first-page":"3150","DOI":"10.1093\/bioinformatics\/bts565","article-title":"CD-HIT: accelerated for clustering the next-generation sequencing data","volume":"28","author":"Fu","year":"2012","journal-title":"Bioinformatics"},{"issue":"1","key":"2021072800102512000_msaa192-B23","doi-asserted-by":"crossref","first-page":"21","DOI":"10.1074\/jbc.R111.241976","article-title":"Divergence and convergence in enzyme evolution","volume":"287","author":"Galperin","year":"2012","journal-title":"J Biol Chem"},{"issue":"20","key":"2021072800102512000_msaa192-B24","doi-asserted-by":"crossref","first-page":"10911","DOI":"10.1073\/pnas.1920011117","article-title":"The origin and diversification of a novel protein family in venomous snakes","volume":"117","author":"Giorgianni","year":"2020","journal-title":"Proc Natl Acad Sci U S A"},{"issue":"7","key":"2021072800102512000_msaa192-B25","doi-asserted-by":"crossref","first-page":"644","DOI":"10.1038\/nbt.1883","article-title":"Full-length transcriptome assembly from RNA-Seq data without a reference genome","volume":"29","author":"Grabherr","year":"2011","journal-title":"Nat Biotechnol"},{"issue":"7","key":"2021072800102512000_msaa192-B26","doi-asserted-by":"crossref","first-page":"958","DOI":"10.1016\/j.toxicon.2009.01.038","article-title":"Experimental pathology of local tissue damage induced by Bothrops asper snake venom","volume":"54","author":"Guti\u00e9rrez","year":"2009","journal-title":"Toxicon"},{"issue":"1-2","key":"2021072800102512000_msaa192-B27","doi-asserted-by":"crossref","first-page":"105","DOI":"10.1081\/TXR-120004743","article-title":"Bites and envenomations by colubrid snakes in Mexico and Central America","volume":"21","author":"Guti\u00e9rrez","year":"2002","journal-title":"J Toxicol Toxin Rev"},{"issue":"8","key":"2021072800102512000_msaa192-B28","doi-asserted-by":"crossref","first-page":"2088","DOI":"10.1093\/gbe\/evu166","article-title":"Restriction and recruitment-gene duplication and the origin and evolution of snake venom toxins","volume":"6","author":"Hargreaves","year":"2014","journal-title":"Genome Biol Evol"},{"issue":"5","key":"2021072800102512000_msaa192-B29","doi-asserted-by":"crossref","first-page":"1226","DOI":"10.1177\/00220345950740051301","article-title":"Expression of basement membrane type IV collagen and type IV collagenases (MMP-2 and MMP-9) in human fetal teeth","volume":"74","author":"Heikinheimo","year":"1995","journal-title":"J Dent Res"},{"issue":"1","key":"2021072800102512000_msaa192-B30","doi-asserted-by":"crossref","first-page":"15534","DOI":"10.1038\/s41598-018-33943-5","article-title":"Comparative venom-gland transcriptomics and venom proteomics of four Sidewinder rattlesnake (Crotalus cerastes) lineages reveal little differential expression despite individual variation","volume":"8","author":"Hofmann","year":"2018","journal-title":"Sci Rep"},{"issue":"1346","key":"2021072800102512000_msaa192-B31","doi-asserted-by":"crossref","first-page":"119","DOI":"10.1098\/rspb.1994.0058","article-title":"The evolution of functionally novel proteins after gene duplication","volume":"256","author":"Hughes","year":"1994","journal-title":"Proc Biol Sci"},{"issue":"1","key":"2021072800102512000_msaa192-B32","doi-asserted-by":"crossref","first-page":"63","DOI":"10.1186\/1471-2148-7-63","article-title":"The evolution of the vertebrate metzincins; Insights from Ciona intestinalis and Danio rerio","volume":"7","author":"Huxley-Jones","year":"2007","journal-title":"BMC Evol Biol"},{"issue":"3","key":"2021072800102512000_msaa192-B33","doi-asserted-by":"crossref","first-page":"754","DOI":"10.1093\/molbev\/msu337","article-title":"Venom-related transcripts from Bothrops jararaca tissues provide novel molecular insights into the production and evolution of snake venom","volume":"32","author":"Junqueira-de-Azevedo","year":"2015","journal-title":"Mol Biol Evol"},{"issue":"8","key":"2021072800102512000_msaa192-B34","doi-asserted-by":"crossref","first-page":"230","DOI":"10.3390\/toxins8080230","article-title":"Colubrid venom composition: an -omics perspective","volume":"8","author":"Junqueira-de-Azevedo","year":"2016","journal-title":"Toxins (Basel)"},{"issue":"6","key":"2021072800102512000_msaa192-B35","doi-asserted-by":"crossref","first-page":"855","DOI":"10.1016\/j.toxicon.2010.07.010","article-title":"Structure, function and evolution of three-finger toxins: mini proteins with multiple targets","volume":"56","author":"Kini","year":"2010","journal-title":"Toxicon"},{"issue":"2","key":"2021072800102512000_msaa192-B36","doi-asserted-by":"crossref","first-page":"157","DOI":"10.2131\/jts.31.157","article-title":"Characterization of a novel metalloproteinase in Duvernoy\u2019s gland of Rhabdophis tigrinus tigrinus","volume":"31","author":"Komori","year":"2006","journal-title":"J Toxicol Sci"},{"issue":"1","key":"2021072800102512000_msaa192-B38","doi-asserted-by":"crossref","first-page":"1475","DOI":"10.2741\/2161","article-title":"The dual personalities of matrix metalloproteinases in inflammation","volume":"12","author":"Le","year":"2007","journal-title":"Front Biosci"},{"key":"2021072800102512000_msaa192-B39","first-page":"371","article-title":"Haemorrhagic, proteolytic and neurotoxic activities produced by Duvernoy\u2019s gland secretion from the false coral snake (Erythrolamprus bizona Jan 1863) (Serpentes: Colubridae)","volume":"13","author":"Lemoine","year":"2003","journal-title":"Rev Cient la Fac Ciencias Vet la Univ del Zulia"},{"issue":"W1","key":"2021072800102512000_msaa192-B40","doi-asserted-by":"crossref","first-page":"W242","DOI":"10.1093\/nar\/gkw290","article-title":"Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees","volume":"44","author":"Letunic","year":"2016","journal-title":"Nucleic Acids Res"},{"issue":"1","key":"2021072800102512000_msaa192-B41","doi-asserted-by":"crossref","first-page":"323","DOI":"10.1186\/1471-2105-12-323","article-title":"RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome","volume":"12","author":"Li","year":"2011","journal-title":"BMC Bioinformatics"},{"key":"2021072800102512000_msaa192-B42","volume-title":"Handbook of venoms and toxins of reptiles","author":"Mackessy","year":"2010","edition":"1st ed"},{"issue":"5","key":"2021072800102512000_msaa192-B43","doi-asserted-by":"crossref","first-page":"537","DOI":"10.1016\/j.toxicon.2006.01.007","article-title":"Venom of the brown treesnake, Boiga irregularis: ontogenetic shifts and taxa-specific toxicity","volume":"47","author":"Mackessy","year":"2006","journal-title":"Toxicon"},{"issue":"12","key":"2021072800102512000_msaa192-B44","doi-asserted-by":"crossref","first-page":"1075","DOI":"10.1096\/fasebj.12.12.1075","article-title":"Matrix metalloproteinases: structures, evolution, and diversification","volume":"12","author":"Massova","year":"1998","journal-title":"FASEB J"},{"issue":"10","key":"2021072800102512000_msaa192-B45","doi-asserted-by":"crossref","first-page":"1810","DOI":"10.1016\/j.bbabio.2014.05.355","article-title":"Replacement of a terminal cytochrome c oxidase by ubiquinol oxidase during the evolution of acetic acid bacteria","volume":"1837","author":"Matsutani","year":"2014","journal-title":"Biochim BiophysActa Bioenerg"},{"key":"2021072800102512000_msaa192-B46","doi-asserted-by":"crossref","first-page":"40","DOI":"10.1016\/j.toxicon.2019.03.005","article-title":"Bites by Tomodon dorsatus (Serpentes, Dipsadidae): clinical and epidemiological study of 86 cases","volume":"162","author":"Medeiros","year":"2019","journal-title":"Toxicon"},{"key":"2021072800102512000_msaa192-B47","first-page":"1","volume":"52","author":"Menegucci","year":"2019","journal-title":"southeastern Brazil. Rev Soc Bras Med Trop."},{"key":"2021072800102512000_msaa192-B49","doi-asserted-by":"crossref","first-page":"223","DOI":"10.1016\/j.jprot.2018.08.004","article-title":"Transcriptome-facilitated proteomic characterization of rear-fanged snake venoms reveal abundant metalloproteinases with enhanced activity","volume":"187","author":"Modahl","year":"2018","journal-title":"J Proteomics"},{"issue":"9","key":"2021072800102512000_msaa192-B50","doi-asserted-by":"crossref","first-page":"6632","DOI":"10.1016\/S0021-9258(17)37419-7","article-title":"Assessment of the role of the fibronectin-like domain of gelatinase A by analysis of a deletion mutant","volume":"269","author":"Murphy","year":"1994","journal-title":"J Biol Chem"},{"issue":"1","key":"2021072800102512000_msaa192-B51","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/j.toxicon.2004.07.028","article-title":"Molecular diversity and accelerated evolution of C-type lectin-like proteins from snake venom","volume":"45","author":"Ogawa","year":"2005","journal-title":"Toxicon"},{"issue":"1","key":"2021072800102512000_msaa192-B52","doi-asserted-by":"crossref","first-page":"31","DOI":"10.1186\/1745-6150-5-31","article-title":"Non-homologous isofunctional enzymes: a systematic analysis of alternative solutions in enzyme evolution","volume":"5","author":"Omelchenko","year":"2010","journal-title":"Biol Direct"},{"key":"2021072800102512000_msaa192-B53","doi-asserted-by":"crossref","first-page":"12","DOI":"10.1111\/j.1749-6632.1999.tb07671.x","article-title":"Role of matrix metalloproteinases and their inhibition in cutaneous wound healing and allergic contact hypersensitivity","volume":"878","author":"Pilcher","year":"1999","journal-title":"Ann NY Acad Sci"},{"issue":"1-2","key":"2021072800102512000_msaa192-B54","doi-asserted-by":"crossref","first-page":"117","DOI":"10.1081\/TXR-120004744","article-title":"South American colubrid envenomations","volume":"21","author":"Prado-Franceschi","year":"2002","journal-title":"J Toxicol Toxin Rev"},{"issue":"90001","key":"2021072800102512000_msaa192-B55","doi-asserted-by":"crossref","first-page":"D270","DOI":"10.1093\/nar\/gkj089","article-title":"MEROPS: the peptidase database","volume":"34","author":"Rawlings","year":"2006","journal-title":"Nucleic Acids Res"},{"issue":"2","key":"2021072800102512000_msaa192-B56","doi-asserted-by":"crossref","first-page":"217","DOI":"10.1111\/j.2041-210X.2011.00169.x","article-title":"phytools: an R package for phylogenetic comparative biology (and other things)","volume":"3","author":"Revell","year":"2012","journal-title":"Methods Ecol Evol"},{"issue":"1","key":"2021072800102512000_msaa192-B57","doi-asserted-by":"crossref","first-page":"95","DOI":"10.1016\/j.toxicon.2005.10.005","article-title":"Duvernoy\u2019s gland secretion of Philodryas olfersii and Philodryas patagoniensis (Colubridae): neutralization of local and systemic effects by commercial bothropic antivenom (Bothrops genus)","volume":"47","author":"Rocha","year":"2006","journal-title":"Toxicon"},{"issue":"1","key":"2021072800102512000_msaa192-B58","doi-asserted-by":"crossref","first-page":"312","DOI":"10.1186\/1471-2164-13-312","article-title":"The venom-gland transcriptome of the eastern diamondback rattlesnake (Crotalus adamanteus)","volume":"13","author":"Rokyta","year":"2012","journal-title":"BMC Genomics"},{"issue":"10","key":"2021072800102512000_msaa192-B59","doi-asserted-by":"crossref","first-page":"1227","DOI":"10.1016\/j.str.2007.07.019","article-title":"Insights into the structure and domain flexibility of full-length pro-matrix metalloproteinase-9\/gelatinase B","volume":"15","author":"Rosenblum","year":"2007","journal-title":"Structure"},{"key":"2021072800102512000_msaa192-B60","first-page":"307","article-title":"Colubrid snakebite: a public health problem in Brazil","volume":"34","author":"Salom\u00e3o","year":"2003","journal-title":"Herpetol Rev"},{"key":"2021072800102512000_msaa192-B61","doi-asserted-by":"crossref","first-page":"71","DOI":"10.1016\/j.toxicon.2019.04.007","article-title":"Unveiling toxicological aspects of venom from the Aesculapian false coral snake Erythrolamprus aesculapii","volume":"164","author":"S\u00e1nchez","year":"2019","journal-title":"Toxicon"},{"issue":"7","key":"2021072800102512000_msaa192-B62","doi-asserted-by":"crossref","first-page":"216","DOI":"10.3390\/toxins8070216","article-title":"Insights into the evolution of a snake venom multi-gene family from the genomic organization of Echis ocellatus SVMP genes","volume":"8","author":"Sanz","year":"2016","journal-title":"Toxins (Basel)"},{"issue":"4","key":"2021072800102512000_msaa192-B63","doi-asserted-by":"crossref","first-page":"455","DOI":"10.1016\/j.toxicon.2012.04.331","article-title":"First draft of the genomic organization of a PIII-SVMP gene","volume":"60","author":"Sanz","year":"2012","journal-title":"Toxicon"},{"issue":"4","key":"2021072800102512000_msaa192-B64","doi-asserted-by":"crossref","first-page":"185","DOI":"10.3109\/15569543.2014.942040","article-title":"Rear-fanged snake venoms: an untapped source of novel compounds and potential drug leads","volume":"33","author":"Saviola","year":"2014","journal-title":"Toxin Rev"},{"issue":"8","key":"2021072800102512000_msaa192-B65","doi-asserted-by":"crossref","first-page":"1115","DOI":"10.1016\/j.toxicon.2005.02.020","article-title":"Snake venom serine proteinases: sequence homology vs. substrate specificity, a paradox to be solved","volume":"45","author":"Serrano","year":"2005","journal-title":"Toxicon"},{"issue":"8","key":"2021072800102512000_msaa192-B66","doi-asserted-by":"crossref","first-page":"4335","DOI":"10.1074\/jbc.271.8.4335","article-title":"The structural basis for the elastolytic activity of the 92-kDa and 72-kDa gelatinases: role of the fibronectin type II-like repeats","volume":"271","author":"Shipley","year":"1996","journal-title":"J Biol Chem"},{"issue":"9","key":"2021072800102512000_msaa192-B67","doi-asserted-by":"crossref","first-page":"1312","DOI":"10.1093\/bioinformatics\/btu033","article-title":"RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies","volume":"30","author":"Stamatakis","year":"2014","journal-title":"Bioinformatics"},{"issue":"5","key":"2021072800102512000_msaa192-B68","doi-asserted-by":"crossref","first-page":"823","DOI":"10.1002\/pro.5560040502","article-title":"The metzincins\u2014topological and sequential relations between the astacins, adamalysins, serralysins, and matrixins (collagenases) define a super family of zinc peptidases","volume":"4","author":"St\u00f6cker","year":"2008","journal-title":"Protein Sci"},{"issue":"9","key":"2021072800102512000_msaa192-B69","doi-asserted-by":"crossref","first-page":"290","DOI":"10.3390\/toxins9090290","article-title":"A review and database of snake venom proteomes","volume":"9","author":"Tasoulis","year":"2017","journal-title":"Toxins (Basel)"},{"issue":"1","key":"2021072800102512000_msaa192-B70","doi-asserted-by":"crossref","first-page":"53","DOI":"10.1146\/annurev.cellbio.18.020402.140619","article-title":"Gene co-option in physiological and morphological evolution","volume":"18","author":"True","year":"2002","journal-title":"Annu Rev Cell Dev Biol"},{"issue":"1","key":"2021072800102512000_msaa192-B71","doi-asserted-by":"crossref","first-page":"59","DOI":"10.11646\/zootaxa.2334.1.3","article-title":"The original descriptions of reptiles","volume":"2334","author":"Uetz","year":"2010","journal-title":"Zootaxa"},{"issue":"2","key":"2021072800102512000_msaa192-B72","doi-asserted-by":"crossref","first-page":"498","DOI":"10.1073\/pnas.59.2.498","article-title":"Metalloenzymes: the entatic nature of their active sites","volume":"59","author":"Vallee","year":"1968","journal-title":"Proc Natl Acad Sci U S A"},{"issue":"3","key":"2021072800102512000_msaa192-B73","doi-asserted-by":"crossref","first-page":"222","DOI":"10.3109\/10409238.2013.770819","article-title":"Biochemistry and molecular biology of gelatinase B or matrix metalloproteinase-9 (MMP-9):","volume":"48","author":"Vandooren","year":"2013","journal-title":"the next decade. Crit Rev Biochem Mol Biol"},{"issue":"51","key":"2021072800102512000_msaa192-B74","doi-asserted-by":"crossref","first-page":"20651","DOI":"10.1073\/pnas.1314702110","article-title":"The king cobra genome reveals dynamic gene evolution and adaptation in the snake venom system","volume":"110","author":"Vonk","year":"2013","journal-title":"Proc Natl Acad Sci U S A"},{"issue":"4","key":"2021072800102512000_msaa192-B75","doi-asserted-by":"crossref","first-page":"281","DOI":"10.1007\/s12064-012-0162-3","article-title":"Measurement of mRNA abundance using RNA-seq data: RPKM measure is inconsistent among samples","volume":"131","author":"Wagner","year":"2012","journal-title":"Theory Biosci"},{"issue":"3","key":"2021072800102512000_msaa192-B76","doi-asserted-by":"crossref","first-page":"159","DOI":"10.1007\/s12064-013-0178-3","article-title":"A model based criterion for gene expression calls using RNA-seq data","volume":"132","author":"Wagner","year":"2013","journal-title":"Theory Biosci"},{"key":"2021072800102512000_msaa192-B77","doi-asserted-by":"crossref","first-page":"25","DOI":"10.7554\/eLife.06369","article-title":"Evolution of alternative biosynthetic pathways for vitamin C following plastid acquisition in photosynthetic eukaryotes","volume":"4","author":"Wheeler","year":"2015","journal-title":"Elife"},{"issue":"1","key":"2021072800102512000_msaa192-B78","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/j.gene.2012.01.009","article-title":"Venom evolution through gene duplications","volume":"496","author":"Wong","year":"2012","journal-title":"Gene"},{"issue":"7","key":"2021072800102512000_msaa192-B79","doi-asserted-by":"crossref","first-page":"614","DOI":"10.1080\/14772000.2018.1478910","article-title":"Origin and hidden diversity within the poorly known Gal\u00e1pagos snake radiation (Serpentes: Dipsadidae)","volume":"16","author":"Zaher","year":"2018","journal-title":"Syst Biodivers"},{"issue":"2-3","key":"2021072800102512000_msaa192-B80","doi-asserted-by":"crossref","first-page":"666","DOI":"10.1016\/j.toxicon.2009.09.015","article-title":"Preliminary biochemical characterization of the venoms of five Colubridae species from Brazil","volume":"55","author":"Zelanis","year":"2010","journal-title":"Toxicon"},{"issue":"5","key":"2021072800102512000_msaa192-B81","doi-asserted-by":"crossref","first-page":"614","DOI":"10.1093\/bioinformatics\/btt593","article-title":"PEAR: a fast and accurate Illumina Paired-End reAd mergeR","volume":"30","author":"Zhang","year":"2014","journal-title":"Bioinformatics"}],"container-title":["Molecular Biology and Evolution"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/mbe\/advance-article-pdf\/doi\/10.1093\/molbev\/msaa192\/33822144\/msaa192.pdf","content-type":"application\/pdf","content-version":"am","intended-application":"syndication"},{"URL":"http:\/\/academic.oup.com\/mbe\/article-pdf\/37\/12\/3563\/34927402\/msaa192.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"http:\/\/academic.oup.com\/mbe\/article-pdf\/37\/12\/3563\/34927402\/msaa192.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2021,7,28]],"date-time":"2021-07-28T00:11:04Z","timestamp":1627431064000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/mbe\/article\/37\/12\/3563\/5877437"}},"subtitle":[],"editor":[{"given":"John","family":"True","sequence":"additional","affiliation":[],"role":[{"role":"editor","vocabulary":"crossref"}]}],"short-title":[],"issued":{"date-parts":[[2020,7,28]]},"references-count":79,"journal-issue":{"issue":"12","published-online":{"date-parts":[[2020,7,28]]},"published-print":{"date-parts":[[2020,12,16]]}},"URL":"https:\/\/doi.org\/10.1093\/molbev\/msaa192","relation":{},"ISSN":["0737-4038","1537-1719"],"issn-type":[{"value":"0737-4038","type":"print"},{"value":"1537-1719","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2020,12]]},"published":{"date-parts":[[2020,7,28]]}}}