{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,24]],"date-time":"2026-07-24T14:45:57Z","timestamp":1784904357035,"version":"3.55.0"},"reference-count":37,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2017,9,4]],"date-time":"2017-09-04T00:00:00Z","timestamp":1504483200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0"},{"start":{"date-parts":[[2017,9,4]],"date-time":"2017-09-04T00:00:00Z","timestamp":1504483200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Sci Rep"],"abstract":"<jats:title>Abstract<\/jats:title><jats:p>HSP47\/SERPINH1 is key-regulator for collagen biosynthesis and its structural assembly. To date, there is no comprehensive study on the phylogenetic history of HSP47. Herein we illustrate the evolutionary history of HSP47\/SERPINH1 along with sequence, structural and syntenic\u00a0traits for HSP47\/SERPINH1. We have identified ancestral HSP47\/SERPINH1 locus in Japanese lamprey (<jats:italic>Lethenteron japonicum<\/jats:italic>). This gene remains on the same or similar locus for ~500 million years (MY), but chromosomal duplication was observed in ray-finned fishes, leading into three sets of three sets (I-III) of HSP47\/SERPINH1. Two novel introns were inserted at the positions 36b and 102b in the first exon of only HSP47_1 gene from the selected ray-finned fishes. On the evolutionary time scale, the events of HSP47 duplications took placed between 416\u2013360 MY ago (MYA) while intron insertion dates back to 231\u2013190 MYA after early divergence of ray-finned fishes.<\/jats:p>","DOI":"10.1038\/s41598-017-10740-0","type":"journal-article","created":{"date-parts":[[2017,8,29]],"date-time":"2017-08-29T14:54:54Z","timestamp":1504018494000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":15,"title":["Ancestry &amp; molecular evolutionary analyses of heat shock protein 47\u2009kDa (HSP47\/SERPINH1)"],"prefix":"10.1038","volume":"7","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-4172-4059","authenticated-orcid":false,"given":"Abhishek","family":"Kumar","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Anita","family":"Bhandari","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sandeep J.","family":"Sarde","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Chandan","family":"Goswami","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2017,9,4]]},"reference":[{"key":"10740_CR1","doi-asserted-by":"publisher","unstructured":"Kumar, A. Bayesian phylogeny analysis of vertebrate serpins illustrates evolutionary conservation of the intron and indels based six groups classification system from lampreys for ~500 MY. PEERJ, 1\u20132, doi:10.7717\/peerj.1026 (2015).","DOI":"10.7717\/peerj.1026"},{"key":"10740_CR2","doi-asserted-by":"publisher","DOI":"10.1016\/j.semcdb.2016.11.005","author":"S Ito","year":"2016","unstructured":"Ito, S. & Nagata, K. Biology of Hsp47 (Serpin H1), a collagen-specific molecular chaperone. Seminars in cell & developmental biology. doi:10.1016\/j.semcdb.2016.11.005 (2016).","journal-title":"Seminars in cell & developmental biology"},{"key":"10740_CR3","doi-asserted-by":"publisher","first-page":"33293","DOI":"10.1074\/jbc.R100016200","volume":"276","author":"GA Silverman","year":"2001","unstructured":"Silverman, G. A. et al. The serpins are an expanding superfamily of structurally similar but functionally diverse proteins. Evolution, mechanism of inhibition, novel functions, and a revised nomenclature. J Biol Chem \n                           276, 33293\u201333296 (2001).","journal-title":"J Biol Chem"},{"key":"10740_CR4","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2148-8-250","volume":"8","author":"A Kumar","year":"2008","unstructured":"Kumar, A. & Ragg, H. Ancestry and evolution of a secretory pathway serpin. BMC Evol Biol \n                           8, 250, doi:10.1186\/1471-2148-8-250 (2008).","journal-title":"BMC Evol Biol"},{"key":"10740_CR5","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0022046","volume":"6","author":"A Kumar","year":"2011","unstructured":"Kumar, A., Bhandari, A., Sinha, R., Goyal, P. & Grapputo, A. Spliceosomal intron insertions in genome compacted ray-finned fishes as evident from phylogeny of MC receptors, also supported by a few other GPCRs. PloS one \n                           6, e22046, doi:10.1371\/journal.pone.0022046 (2011).","journal-title":"PloS one"},{"key":"10740_CR6","first-page":"1","volume":"2","author":"A Kumar","year":"2015","unstructured":"Kumar, A. Gene Duplications and Fates of Genes after Duplication Events. Austin Journal of Genetics and Genomic Research \n                           2, 1\u20133 (2015).","journal-title":"Austin Journal of Genetics and Genomic Research"},{"key":"10740_CR7","doi-asserted-by":"publisher","first-page":"W465","DOI":"10.1093\/nar\/gki458","volume":"33","author":"M Stanke","year":"2005","unstructured":"Stanke, M. & Morgenstern, B. AUGUSTUS: a web server for gene prediction in eukaryotes that allows user-defined constraints. Nucleic Acids Research \n                           33, W465\u2013W467, doi:10.1093\/nar\/gki458 (2005).","journal-title":"Nucleic Acids Research"},{"key":"10740_CR8","doi-asserted-by":"publisher","DOI":"10.1155\/2008\/619832","volume":"2008","author":"A Conesa","year":"2008","unstructured":"Conesa, A. & Gotz, S. Blast2GO: A comprehensive suite for functional analysis in plant genomics. Int J Plant Genomics \n                           2008, 619832, doi:10.1155\/2008\/619832 (2008).","journal-title":"Int J Plant Genomics"},{"key":"10740_CR9","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1101\/cshperspect.a003707","volume":"3","author":"CL Will","year":"2011","unstructured":"Will, C. L. & L\u00fchrmann, R. Spliceosome structure and function. Cold Spring Harbor perspectives in biology \n                           3, 1\u201323, doi:10.1101\/cshperspect.a003707 (2011).","journal-title":"Cold Spring Harbor perspectives in biology"},{"key":"10740_CR10","doi-asserted-by":"publisher","first-page":"211","DOI":"10.1038\/nrg1807","volume":"7","author":"SW Roy","year":"2006","unstructured":"Roy, S. W. & Gilbert, W. The evolution of spliceosomal introns: patterns, puzzles and progress. Nature reviews. Genetics \n                           7, 211\u2013221, doi:10.1038\/nrg1807 (2006).","journal-title":"Nature reviews. Genetics"},{"key":"10740_CR11","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2148-9-208","volume":"9","author":"H Ragg","year":"2009","unstructured":"Ragg, H. et al. Multiple gains of spliceosomal introns in a superfamily of vertebrate protease inhibitor genes. BMC Evol Biol \n                           9, 208, doi:10.1186\/1471-2148-9-208 (2009).","journal-title":"BMC Evol Biol"},{"key":"10740_CR12","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2148-11-364","volume":"11","author":"P Yenerall","year":"2011","unstructured":"Yenerall, P., Krupa, B. & Zhou, L. Mechanisms of intron gain and loss in Drosophila. BMC Evol Biol \n                           11, 364, doi:10.1186\/1471-2148-11-364 (2011).","journal-title":"BMC Evol Biol"},{"key":"10740_CR13","doi-asserted-by":"publisher","DOI":"10.1186\/1745-6150-7-29","volume":"7","author":"P Yenerall","year":"2012","unstructured":"Yenerall, P. & Zhou, L. Identifying the mechanisms of intron gain: progress and trends. Biology direct \n                           7, 29, doi:10.1186\/1745-6150-7-29 (2012).","journal-title":"Biology direct"},{"key":"10740_CR14","unstructured":"Kumar, A. Phylogenomics of vertebrate serpins Ph.D. (Bioinformatics) thesis, Bielefeld University (2010)."},{"key":"10740_CR15","doi-asserted-by":"publisher","DOI":"10.1016\/j.mod.2015.06.004","author":"J Bhadra","year":"2015","unstructured":"Bhadra, J. & Iovine, M. K. Hsp47 mediates Cx43-dependent skeletal growth and patterning in the regenerating fin. Mech Dev. doi:10.1016\/j.mod.2015.06.004 (2015).","journal-title":"Mech Dev"},{"key":"10740_CR16","doi-asserted-by":"publisher","first-page":"504","DOI":"10.1016\/j.bbrc.2014.02.139","volume":"446","author":"A Kumar","year":"2014","unstructured":"Kumar, A., Sarde, S. J. & Bhandari, A. Revising angiotensinogen from phylogenetic and genetic variants perspectives. Biochemical and biophysical research communications \n                           446, 504\u2013518, doi:10.1016\/j.bbrc.2014.02.139 (2014).","journal-title":"Biochemical and biophysical research communications"},{"key":"10740_CR17","doi-asserted-by":"publisher","unstructured":"Kumar, A. & Bhandari, A. Urochordate serpins are Classified into Six Groups Encoded by Exon-Intron Structures, Microsynteny and Bayesian Phylogenetic Analyses. Journal of Genomics \n                           2, doi:10.7150\/jgen.9437 (2014).","DOI":"10.7150\/jgen.9437"},{"key":"10740_CR18","doi-asserted-by":"publisher","first-page":"714","DOI":"10.1016\/j.bbrc.2013.09.134","volume":"440","author":"A Kumar","year":"2013","unstructured":"Kumar, A., Bhandari, A., Sarde, S. J. & Goswami, C. Sequence, phylogenetic and variant analyses of antithrombin III. Biochemical and biophysical research communications \n                           440, 714\u2013724, doi:10.1016\/j.bbrc.2013.09.134 (2013).","journal-title":"Biochemical and biophysical research communications"},{"key":"10740_CR19","doi-asserted-by":"publisher","first-page":"11367","DOI":"10.1073\/pnas.0502934102","volume":"102","author":"C Benarafa","year":"2005","unstructured":"Benarafa, C. & Remold-O\u2019Donnell, E. The ovalbumin serpins revisited: perspective from the chicken genome of clade B serpin evolution in vertebrates. Proc Natl Acad Sci USA \n                           102, 11367\u201311372 (2005).","journal-title":"Proc Natl Acad Sci USA"},{"key":"10740_CR20","doi-asserted-by":"publisher","first-page":"336","DOI":"10.1016\/S0888-7543(02)00041-1","volume":"81","author":"S Forsyth","year":"2003","unstructured":"Forsyth, S., Horvath, A. & Coughlin, P. A review and comparison of the murine alpha1-antitrypsin and alpha1-antichymotrypsin multigene clusters with the human clade A serpins. Genomics \n                           81, 336\u2013345 (2003). doi:S0888754302000411.","journal-title":"Genomics"},{"key":"10740_CR21","doi-asserted-by":"crossref","unstructured":"Zang, X. & Maizels, R. M. Serine proteinase inhibitors from nematodes and the arms race between host and pathogen. Trends Biochem Sci \n                           26, 191\u2013197, doi:S0968-0004(00)01761-8 [pii] (2001).","DOI":"10.1016\/S0968-0004(00)01761-8"},{"key":"10740_CR22","doi-asserted-by":"crossref","unstructured":"Reichhart, J.-M. Tip of another iceberg: Drosophila serpins. Trends Cell Biol (2005).","DOI":"10.1016\/j.tcb.2005.10.001"},{"key":"10740_CR23","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0086012","volume":"9","author":"A Kumar","year":"2014","unstructured":"Kumar, A. et al. 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Gene Expr Patterns \n                           19, 60\u201369, doi:10.1016\/j.gep.2015.07.004 (2015).","journal-title":"Gene Expr Patterns"},{"key":"10740_CR26","doi-asserted-by":"publisher","first-page":"440","DOI":"10.1002\/jemt.20929","volume":"74","author":"I Duran","year":"2011","unstructured":"Duran, I., Mari-Beffa, M., Santamaria, J. A., Becerra, J. & Santos-Ruiz, L. Freeze substitution followed by low melting point wax embedding preserves histomorphology and allows protein and mRNA localization techniques. Microsc Res Tech \n                           74, 440\u2013448, doi:10.1002\/jemt.20929 (2011).","journal-title":"Microsc Res Tech"},{"key":"10740_CR27","doi-asserted-by":"publisher","first-page":"191","DOI":"10.1002\/jcp.20112","volume":"202","author":"T Hattori","year":"2005","unstructured":"Hattori, T. et al. Downregulation of rheumatoid arthritis-related antigen RA-A47 (HSP47\/colligin-2) in chondrocytic cell lines induces apoptosis and cell-surface expression of RA-A47 in association with CD9. J Cell Physiol \n                           202, 191\u2013204, doi:10.1002\/jcp.20112 (2005).","journal-title":"J Cell Physiol"},{"key":"10740_CR28","doi-asserted-by":"publisher","first-page":"49","DOI":"10.1016\/j.gene.2016.09.035","volume":"595","author":"C Marshall","year":"2016","unstructured":"Marshall, C., Lopez, J., Crookes, L., Pollitt, R. C. & Balasubramanian, M. A novel homozygous variant in SERPINH1 associated with a severe, lethal presentation of osteogenesis imperfecta with hydranencephaly. Gene \n                           595, 49\u201352, doi:10.1016\/j.gene.2016.09.035 (2016).","journal-title":"Gene"},{"key":"10740_CR29","doi-asserted-by":"publisher","first-page":"1580","DOI":"10.1158\/0008-5472.CAN-14-1027","volume":"75","author":"J Zhu","year":"2015","unstructured":"Zhu, J. et al. Chaperone Hsp47 Drives Malignant Growth and Invasion by Modulating an ECM Gene Network. Cancer Res \n                           75, 1580\u20131591, doi:10.1158\/0008-5472.CAN-14-1027 (2015).","journal-title":"Cancer Res"},{"key":"10740_CR30","doi-asserted-by":"publisher","first-page":"D48","DOI":"10.1093\/nar\/gks1236","volume":"41","author":"P Flicek","year":"2013","unstructured":"Flicek, P. et al. Ensembl 2013. Nucl. Acids Res. \n                           41, D48\u2013D55, doi:10.1093\/Nar\/Gks1236 (2013).","journal-title":"Nucl. Acids Res."},{"key":"10740_CR31","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-5-113","volume":"5","author":"RC Edgar","year":"2004","unstructured":"Edgar, R. C. MUSCLE: a multiple sequence alignment method with reduced time and space complexity. BMC Bioinformatics \n                           5, 113 (2004).","journal-title":"BMC Bioinformatics"},{"key":"10740_CR32","volume":"4","author":"KB Nicholas","year":"1997","unstructured":"Nicholas, K. 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Proteins \n                           47, 393\u2013402 (2002).","journal-title":"Proteins"}],"container-title":["Scientific Reports"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.nature.com\/articles\/s41598-017-10740-0","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.nature.com\/articles\/s41598-017-10740-0.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.nature.com\/articles\/s41598-017-10740-0.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2022,12,23]],"date-time":"2022-12-23T10:01:27Z","timestamp":1671789687000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.nature.com\/articles\/s41598-017-10740-0"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2017,9,4]]},"references-count":37,"journal-issue":{"issue":"1","published-online":{"date-parts":[[2017,12]]}},"alternative-id":["10740"],"URL":"https:\/\/doi.org\/10.1038\/s41598-017-10740-0","relation":{},"ISSN":["2045-2322"],"issn-type":[{"value":"2045-2322","type":"electronic"}],"subject":[],"published":{"date-parts":[[2017,9,4]]},"assertion":[{"value":"6 April 2017","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"14 August 2017","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"4 September 2017","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"The authors declare that they have no competing interests.","order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Competing Interests"}}],"article-number":"10394"}}