{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,5]],"date-time":"2026-08-05T12:53:39Z","timestamp":1785934419147,"version":"3.56.0"},"reference-count":36,"publisher":"Frontiers Media SA","license":[{"start":{"date-parts":[[2020,4,23]],"date-time":"2020-04-23T00:00:00Z","timestamp":1587600000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["frontiersin.org"],"crossmark-restriction":true},"short-container-title":["Front. Microbiol."],"DOI":"10.3389\/fmicb.2020.00672","type":"journal-article","created":{"date-parts":[[2020,4,23]],"date-time":"2020-04-23T05:06:25Z","timestamp":1587618385000},"update-policy":"https:\/\/doi.org\/10.3389\/crossmark-policy","source":"Crossref","is-referenced-by-count":12,"title":["Abundance, Functional, and Evolutionary Analysis of Oxalyl-Coenzyme A Decarboxylase in Human Microbiota"],"prefix":"10.3389","volume":"11","author":[{"given":"Tao","family":"Jiang","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Wenwei","family":"Chen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Linsheng","family":"Cao","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yanfeng","family":"He","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Huiliang","family":"Zhou","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Houping","family":"Mao","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1965","published-online":{"date-parts":[[2020,4,23]]},"reference":[{"key":"B1","doi-asserted-by":"publisher","first-page":"63","DOI":"10.1016\/s0065-2164(10)72003-7","article-title":"Oxalate-degrading bacteria of the human gut as probiotics in the management of kidney stone disease.","volume":"72","author":"Abratt","year":"2010","journal-title":"Adv. Appl. Microbiol."},{"key":"B2","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1007\/BF00446731","article-title":"Oxalobacter formigenes gen. nov., sp. nov.: oxalate-degrading anaerobes that inhabit the gastrointestinal tract.","volume":"141","author":"Allison","year":"1985","journal-title":"Arch. Microbiol."},{"key":"B3","doi-asserted-by":"publisher","first-page":"1891","DOI":"10.1128\/aem.72.3.1891-1899.2006","article-title":"Transcriptional and functional analysis of oxalyl-coenzyme A (CoA) decarboxylase and formyl-CoA transferase genes from Lactobacillus acidophilus.","volume":"72","author":"Azcarate-Peril","year":"2006","journal-title":"Appl. Environ. Microbiol."},{"key":"B4","doi-asserted-by":"publisher","first-page":"41645","DOI":"10.1074\/jbc.M509921200","article-title":"Structural basis for activation of the thiamin diphosphate-dependent enzyme oxalyl-CoA decarboxylase by adenosine diphosphate.","volume":"280","author":"Berthold","year":"2005","journal-title":"J. Biol. Chem."},{"key":"B5","doi-asserted-by":"publisher","first-page":"853","DOI":"10.1016\/j.str.2007.06.001","article-title":"Crystallographic snapshots of oxalyl-CoA decarboxylase give insights into catalysis by nonoxidative ThDP-dependent decarboxylases.","volume":"15","author":"Berthold","year":"2007","journal-title":"Structure"},{"key":"B6","doi-asserted-by":"publisher","first-page":"248","DOI":"10.1016\/0003-2697(76)90527-3","article-title":"A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding.","volume":"72","author":"Bradford","year":"1976","journal-title":"Anal. Biochem."},{"key":"B7","doi-asserted-by":"publisher","first-page":"12327","DOI":"10.1021\/bi700947s","article-title":"Oxalate decarboxylase and oxalate oxidase activities can be interchanged with a specificity switch of up to 282?000 by mutating an active site lid.","volume":"46","author":"Burrell","year":"2007","journal-title":"Biochemistry"},{"key":"B8","doi-asserted-by":"publisher","first-page":"1097","DOI":"10.1046\/j.1523-1755.2001.0600031097.x","article-title":"Reduction of oxaluria after an oral course of lactic acid bacteria at high concentration.","volume":"60","author":"Campieri","year":"2001","journal-title":"Kidney Int."},{"key":"B9","doi-asserted-by":"publisher","first-page":"531","DOI":"10.1016\/j.urology.2011.01.011","article-title":"Oxalobacter colonization in the morbidly obese and correlation with urinary stone risk.","volume":"78","author":"Duffey","year":"2011","journal-title":"Urology"},{"key":"B10","doi-asserted-by":"publisher","first-page":"3841","DOI":"10.1128\/aem.68.8.3841-3847.2002","article-title":"Oxalobacter formigenes and its potential role in human health.","volume":"68","author":"Duncan","year":"2002","journal-title":"Appl. Environ. Microbiol."},{"key":"B11","doi-asserted-by":"publisher","first-page":"5066","DOI":"10.1128\/aem.70.9.5066-5073.2004","article-title":"Characterization and heterologous expression of the oxalyl coenzyme A decarboxylase gene from Bifidobacterium lactis.","volume":"70","author":"Federici","year":"2004","journal-title":"Appl. Environ. Microbiol."},{"key":"B12","doi-asserted-by":"publisher","first-page":"1019","DOI":"10.1016\/j.bbapap.2015.04.015","article-title":"Enzyme function initiative-enzyme similarity tool (EFI-EST): a web tool for generating protein sequence similarity networks.","volume":"1854","author":"Gerlt","year":"2015","journal-title":"Biochim. Biophys. Acta."},{"key":"B13","doi-asserted-by":"publisher","first-page":"1617","DOI":"10.1016\/s0022-5347(01)62363-2","article-title":"Glyoxylate synthesis, and its modulation and influence on oxalate synthesis.","volume":"160","author":"Holmes","year":"1998","journal-title":"J. Urol."},{"key":"B14","doi-asserted-by":"publisher","first-page":"1264","DOI":"10.1038\/ki.2009.32","article-title":"The primary hyperoxalurias.","volume":"75","author":"Hoppe","year":"2009","journal-title":"Kidney Int."},{"key":"B15","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pcbi.1004557","article-title":"High-specificity targeted functional profiling in microbial communities with ShortBRED.","volume":"11","author":"Kaminski","year":"2015","journal-title":"PLoS Comput. Biol."},{"key":"B16","doi-asserted-by":"publisher","first-page":"1160","DOI":"10.1093\/bib\/bbx108","article-title":"MAFFT online service: multiple sequence alignment, interactive sequence choice and visualization.","volume":"19","author":"Katoh","year":"2017","journal-title":"Brief. Bioinform."},{"key":"B17","doi-asserted-by":"publisher","first-page":"111","DOI":"10.1007\/s00240-007-0090-8","article-title":"Intestinal and renal handling of oxalate loads in normal individuals and stone formers.","volume":"35","author":"Knight","year":"2007","journal-title":"Urol. Res."},{"key":"B18","doi-asserted-by":"publisher","first-page":"1870","DOI":"10.1093\/molbev\/msw054","article-title":"MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets.","volume":"33","author":"Kumar","year":"2016","journal-title":"Mol. Biol. Evol."},{"key":"B19","doi-asserted-by":"publisher","first-page":"110","DOI":"10.1111\/j.1574-6941.2007.00327.x","article-title":"Lactobacillus gasseri gasser AM63T degrades oxalate in a multistage continuous culture simulator of the human colonic microbiota.","volume":"61","author":"Lewanika","year":"2007","journal-title":"FEMS Microbiol. Ecol."},{"key":"B20","doi-asserted-by":"publisher","DOI":"10.1101\/2020.01.27.20018770","article-title":"Microbial contributions to oxalate metabolism in health and disease.","author":"Liu","year":"2020","journal-title":"medRxiv"},{"key":"B21","doi-asserted-by":"publisher","first-page":"180","DOI":"10.1016\/j.kint.2019.02.012","article-title":"Inhibition of urinary stone disease by a multi-species bacterial network ensures healthy oxalate homeostasis.","volume":"96","author":"Miller","year":"2019","journal-title":"Kidney Int."},{"key":"B22","doi-asserted-by":"publisher","first-page":"398","DOI":"10.1016\/0006-3002(62)91142-3","article-title":"Chemical synthesis of oxalyl-coenzyme A and its enzymic reduction to glyoxylate.","volume":"57","author":"Quayle","year":"1962","journal-title":"Biochim. Biophys. Acta"},{"key":"B23","doi-asserted-by":"publisher","first-page":"1146","DOI":"10.1038\/ki.2011.287","article-title":"Hyperoxaluria: a gut\u2013kidney axis?","volume":"80","author":"Robijn","year":"2011","journal-title":"Kidney Int."},{"key":"B24","doi-asserted-by":"publisher","first-page":"399","DOI":"10.1016\/S0923-2508(03)00112-8","article-title":"Oxalotrophic bacteria.","volume":"154","author":"Sahin","year":"2003","journal-title":"Res. Microbiol."},{"key":"B25","doi-asserted-by":"publisher","first-page":"2498","DOI":"10.1101\/gr.1239303","article-title":"Cytoscape: a software environment for integrated models of biomolecular interaction networks.","volume":"13","author":"Shannon","year":"2003","journal-title":"Genome Res."},{"key":"B26","doi-asserted-by":"publisher","DOI":"10.1186\/1479-5876-11-306","article-title":"Dietary hyperoxaluria is not reduced by treatment with lactic acid bacteria.","volume":"11","author":"Siener","year":"","journal-title":"J. Transl. Med."},{"key":"B27","doi-asserted-by":"publisher","first-page":"1144","DOI":"10.1038\/ki.2013.104","article-title":"The role of Oxalobacter formigenes colonization in calcium oxalate stone disease.","volume":"83","author":"Siener","year":"","journal-title":"Kidney Int."},{"key":"B28","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-11-284","article-title":"JCoDA: a tool for detecting evolutionary selection.","volume":"11","author":"Steinway","year":"2010","journal-title":"BMC Bioinformatics"},{"key":"B29","doi-asserted-by":"publisher","first-page":"399","DOI":"10.1007\/s00240-016-0882-9","article-title":"Evidence for a distinct gut microbiome in kidney stone formers compared to non-stone formers.","volume":"44","author":"Stern","year":"2016","journal-title":"Urolithiasis"},{"key":"B30","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-018-33773-5","article-title":"Functional eubacteria species along with trans-domain gut inhabitants favour dysgenic diversity in oxalate stone disease.","volume":"8","author":"Suryavanshi","year":"2018","journal-title":"Sc. Rep."},{"key":"B31","doi-asserted-by":"publisher","DOI":"10.1038\/srep34712","article-title":"Hyperoxaluria leads to dysbiosis and drives selective enrichment of oxalate metabolizing bacterial species in recurrent kidney stone endures.","volume":"6","author":"Suryavanshi","year":"2016","journal-title":"Sci. Rep."},{"key":"B32","doi-asserted-by":"publisher","first-page":"176","DOI":"10.1016\/j.abb.2004.08.032","article-title":"The enzymes of oxalate metabolism: unexpected structures and mechanisms.","volume":"433","author":"Svedru\u017ei\u0107","year":"2005","journal-title":"Arch. Biochem. Biophys."},{"key":"B33","doi-asserted-by":"publisher","first-page":"503","DOI":"10.1007\/s00240-018-1037-y","article-title":"16S rRNA gene sequencing reveals altered composition of gut microbiota in individuals with kidney stones.","volume":"46","author":"Tang","year":"2018","journal-title":"Urolithiasis"},{"key":"B34","doi-asserted-by":"publisher","first-page":"2097","DOI":"10.1136\/gutjnl-2017-315734","article-title":"Understanding the gut-kidney axis in nephrolithiasis: an analysis of the gut microbiota composition and functionality of stone formers.","volume":"67","author":"Ticinesi","year":"2018","journal-title":"Gut"},{"key":"B35","doi-asserted-by":"publisher","first-page":"202","DOI":"10.2143\/ac.62.2.2020243","article-title":"Heart failure with mitral valve regurgitation due to primary hyperoxaluria type 1: case report with review of the literature.","volume":"62","author":"Van Driessche","year":"2007","journal-title":"Acta Cardiol."},{"key":"B36","doi-asserted-by":"publisher","first-page":"2628","DOI":"10.1111\/j.1742-464X.2010.07673.x","article-title":"New insights into structure-function relationships of oxalyl CoA decarboxylase from Escherichia coli.","volume":"277","author":"Werther","year":"2010","journal-title":"FEBS J."}],"container-title":["Frontiers in Microbiology"],"original-title":[],"link":[{"URL":"https:\/\/www.frontiersin.org\/article\/10.3389\/fmicb.2020.00672\/full","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2020,4,23]],"date-time":"2020-04-23T05:06:27Z","timestamp":1587618387000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.frontiersin.org\/article\/10.3389\/fmicb.2020.00672\/full"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2020,4,23]]},"references-count":36,"alternative-id":["10.3389\/fmicb.2020.00672"],"URL":"https:\/\/doi.org\/10.3389\/fmicb.2020.00672","relation":{},"ISSN":["1664-302X"],"issn-type":[{"value":"1664-302X","type":"electronic"}],"subject":[],"published":{"date-parts":[[2020,4,23]]},"article-number":"672"}}