A two-tier bioinformatic pipeline to develop probes for target capture of nuclear loci with applications in Melastomataceae

Detalhes bibliográficos
Autor(a) principal: Jantzen, Johanna R.
Data de Publicação: 2020
Outros Autores: Amarasinghe, Prabha, Folk, Ryan A., Reginato, Marcelo, Michelangeli, Fabián Armando, Soltis, Douglas E., Cellinese, Nico, Soltis, Pamela S.
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Institucional da UFRGS
Texto Completo: http://hdl.handle.net/10183/233475
Resumo: Putatively single-copy nuclear (SCN) loci, which are identified using genomic resources of closely related species, are ideal for phylogenomic inference. However, suitable genomic resources are not available for many clades, including Melastomataceae. We introduce a versatile approach to identify SCN loci for clades with few genomic resources and use it to develop probes for target enrichment in the distantly related Memecylon and Tibouchina (Melastomataceae).
id UFRGS-2_cc299b5c80c7cfa0dfc11d4ccaa5a3e1
oai_identifier_str oai:www.lume.ufrgs.br:10183/233475
network_acronym_str UFRGS-2
network_name_str Repositório Institucional da UFRGS
repository_id_str
spelling Jantzen, Johanna R.Amarasinghe, PrabhaFolk, Ryan A.Reginato, MarceloMichelangeli, Fabián ArmandoSoltis, Douglas E.Cellinese, NicoSoltis, Pamela S.2021-12-29T04:27:30Z20202168-0450http://hdl.handle.net/10183/233475001133340Putatively single-copy nuclear (SCN) loci, which are identified using genomic resources of closely related species, are ideal for phylogenomic inference. However, suitable genomic resources are not available for many clades, including Melastomataceae. We introduce a versatile approach to identify SCN loci for clades with few genomic resources and use it to develop probes for target enrichment in the distantly related Memecylon and Tibouchina (Melastomataceae).application/pdfengApplications in Plant Sciences. St. Louis, US. Vol. 8, n. 5 (2020), e11345GenomaHybPiperMarkerMinerMemecylonPhylogenomicsTibouchinaA two-tier bioinformatic pipeline to develop probes for target capture of nuclear loci with applications in MelastomataceaeEstrangeiroinfo:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/openAccessreponame:Repositório Institucional da UFRGSinstname:Universidade Federal do Rio Grande do Sul (UFRGS)instacron:UFRGSTEXT001133340.pdf.txt001133340.pdf.txtExtracted Texttext/plain72428http://www.lume.ufrgs.br/bitstream/10183/233475/2/001133340.pdf.txtba60eff42f56ba1a023916c153d1036eMD52ORIGINAL001133340.pdfTexto completo (inglês)application/pdf1418606http://www.lume.ufrgs.br/bitstream/10183/233475/1/001133340.pdf27aae2af7b95f1232647f6fa390d4e95MD5110183/2334752022-01-07 05:30:41.600123oai:www.lume.ufrgs.br:10183/233475Repositório de PublicaçõesPUBhttps://lume.ufrgs.br/oai/requestopendoar:2022-01-07T07:30:41Repositório Institucional da UFRGS - Universidade Federal do Rio Grande do Sul (UFRGS)false
dc.title.pt_BR.fl_str_mv A two-tier bioinformatic pipeline to develop probes for target capture of nuclear loci with applications in Melastomataceae
title A two-tier bioinformatic pipeline to develop probes for target capture of nuclear loci with applications in Melastomataceae
spellingShingle A two-tier bioinformatic pipeline to develop probes for target capture of nuclear loci with applications in Melastomataceae
Jantzen, Johanna R.
Genoma
HybPiper
MarkerMiner
Memecylon
Phylogenomics
Tibouchina
title_short A two-tier bioinformatic pipeline to develop probes for target capture of nuclear loci with applications in Melastomataceae
title_full A two-tier bioinformatic pipeline to develop probes for target capture of nuclear loci with applications in Melastomataceae
title_fullStr A two-tier bioinformatic pipeline to develop probes for target capture of nuclear loci with applications in Melastomataceae
title_full_unstemmed A two-tier bioinformatic pipeline to develop probes for target capture of nuclear loci with applications in Melastomataceae
title_sort A two-tier bioinformatic pipeline to develop probes for target capture of nuclear loci with applications in Melastomataceae
author Jantzen, Johanna R.
author_facet Jantzen, Johanna R.
Amarasinghe, Prabha
Folk, Ryan A.
Reginato, Marcelo
Michelangeli, Fabián Armando
Soltis, Douglas E.
Cellinese, Nico
Soltis, Pamela S.
author_role author
author2 Amarasinghe, Prabha
Folk, Ryan A.
Reginato, Marcelo
Michelangeli, Fabián Armando
Soltis, Douglas E.
Cellinese, Nico
Soltis, Pamela S.
author2_role author
author
author
author
author
author
author
dc.contributor.author.fl_str_mv Jantzen, Johanna R.
Amarasinghe, Prabha
Folk, Ryan A.
Reginato, Marcelo
Michelangeli, Fabián Armando
Soltis, Douglas E.
Cellinese, Nico
Soltis, Pamela S.
dc.subject.por.fl_str_mv Genoma
topic Genoma
HybPiper
MarkerMiner
Memecylon
Phylogenomics
Tibouchina
dc.subject.eng.fl_str_mv HybPiper
MarkerMiner
Memecylon
Phylogenomics
Tibouchina
description Putatively single-copy nuclear (SCN) loci, which are identified using genomic resources of closely related species, are ideal for phylogenomic inference. However, suitable genomic resources are not available for many clades, including Melastomataceae. We introduce a versatile approach to identify SCN loci for clades with few genomic resources and use it to develop probes for target enrichment in the distantly related Memecylon and Tibouchina (Melastomataceae).
publishDate 2020
dc.date.issued.fl_str_mv 2020
dc.date.accessioned.fl_str_mv 2021-12-29T04:27:30Z
dc.type.driver.fl_str_mv Estrangeiro
info:eu-repo/semantics/article
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.uri.fl_str_mv http://hdl.handle.net/10183/233475
dc.identifier.issn.pt_BR.fl_str_mv 2168-0450
dc.identifier.nrb.pt_BR.fl_str_mv 001133340
identifier_str_mv 2168-0450
001133340
url http://hdl.handle.net/10183/233475
dc.language.iso.fl_str_mv eng
language eng
dc.relation.ispartof.pt_BR.fl_str_mv Applications in Plant Sciences. St. Louis, US. Vol. 8, n. 5 (2020), e11345
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
dc.source.none.fl_str_mv reponame:Repositório Institucional da UFRGS
instname:Universidade Federal do Rio Grande do Sul (UFRGS)
instacron:UFRGS
instname_str Universidade Federal do Rio Grande do Sul (UFRGS)
instacron_str UFRGS
institution UFRGS
reponame_str Repositório Institucional da UFRGS
collection Repositório Institucional da UFRGS
bitstream.url.fl_str_mv http://www.lume.ufrgs.br/bitstream/10183/233475/2/001133340.pdf.txt
http://www.lume.ufrgs.br/bitstream/10183/233475/1/001133340.pdf
bitstream.checksum.fl_str_mv ba60eff42f56ba1a023916c153d1036e
27aae2af7b95f1232647f6fa390d4e95
bitstream.checksumAlgorithm.fl_str_mv MD5
MD5
repository.name.fl_str_mv Repositório Institucional da UFRGS - Universidade Federal do Rio Grande do Sul (UFRGS)
repository.mail.fl_str_mv
_version_ 1815447779070181376

Registros relacionados