Approaches for in silico finishing of microbial genome sequences
Autor(a) principal: | |
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Data de Publicação: | 2017 |
Outros Autores: | , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Genetics and Molecular Biology |
Texto Completo: | http://old.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572017000400553 |
Resumo: | Abstract The introduction of next-generation sequencing (NGS) had a significant effect on the availability of genomic information, leading to an increase in the number of sequenced genomes from a large spectrum of organisms. Unfortunately, due to the limitations implied by the short-read sequencing platforms, most of these newly sequenced genomes remained as “drafts”, incomplete representations of the whole genetic content. The previous genome sequencing studies indicated that finishing a genome sequenced by NGS, even bacteria, may require additional sequencing to fill the gaps, making the entire process very expensive. As such, several in silico approaches have been developed to optimize the genome assemblies and facilitate the finishing process. The present review aims to explore some free (open source, in many cases) tools that are available to facilitate genome finishing. |
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Genetics and Molecular Biology |
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Approaches for in silico finishing of microbial genome sequencesmicrobial geneticsmolecular microbiologygenomicsmicrobiologydraft genomesAbstract The introduction of next-generation sequencing (NGS) had a significant effect on the availability of genomic information, leading to an increase in the number of sequenced genomes from a large spectrum of organisms. Unfortunately, due to the limitations implied by the short-read sequencing platforms, most of these newly sequenced genomes remained as “drafts”, incomplete representations of the whole genetic content. The previous genome sequencing studies indicated that finishing a genome sequenced by NGS, even bacteria, may require additional sequencing to fill the gaps, making the entire process very expensive. As such, several in silico approaches have been developed to optimize the genome assemblies and facilitate the finishing process. The present review aims to explore some free (open source, in many cases) tools that are available to facilitate genome finishing.Sociedade Brasileira de Genética2017-09-01info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersiontext/htmlhttp://old.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572017000400553Genetics and Molecular Biology v.40 n.3 2017reponame:Genetics and Molecular Biologyinstname:Sociedade Brasileira de Genética (SBG)instacron:SBG10.1590/1678-4685-gmb-2016-0230info:eu-repo/semantics/openAccessKremer,Frederico SchmittMcBride,Alan John AlexanderPinto,Luciano da Silvaeng2017-09-01T00:00:00Zoai:scielo:S1415-47572017000400553Revistahttp://www.gmb.org.br/ONGhttps://old.scielo.br/oai/scielo-oai.php||editor@gmb.org.br1678-46851415-4757opendoar:2017-09-01T00:00Genetics and Molecular Biology - Sociedade Brasileira de Genética (SBG)false |
dc.title.none.fl_str_mv |
Approaches for in silico finishing of microbial genome sequences |
title |
Approaches for in silico finishing of microbial genome sequences |
spellingShingle |
Approaches for in silico finishing of microbial genome sequences Kremer,Frederico Schmitt microbial genetics molecular microbiology genomics microbiology draft genomes |
title_short |
Approaches for in silico finishing of microbial genome sequences |
title_full |
Approaches for in silico finishing of microbial genome sequences |
title_fullStr |
Approaches for in silico finishing of microbial genome sequences |
title_full_unstemmed |
Approaches for in silico finishing of microbial genome sequences |
title_sort |
Approaches for in silico finishing of microbial genome sequences |
author |
Kremer,Frederico Schmitt |
author_facet |
Kremer,Frederico Schmitt McBride,Alan John Alexander Pinto,Luciano da Silva |
author_role |
author |
author2 |
McBride,Alan John Alexander Pinto,Luciano da Silva |
author2_role |
author author |
dc.contributor.author.fl_str_mv |
Kremer,Frederico Schmitt McBride,Alan John Alexander Pinto,Luciano da Silva |
dc.subject.por.fl_str_mv |
microbial genetics molecular microbiology genomics microbiology draft genomes |
topic |
microbial genetics molecular microbiology genomics microbiology draft genomes |
description |
Abstract The introduction of next-generation sequencing (NGS) had a significant effect on the availability of genomic information, leading to an increase in the number of sequenced genomes from a large spectrum of organisms. Unfortunately, due to the limitations implied by the short-read sequencing platforms, most of these newly sequenced genomes remained as “drafts”, incomplete representations of the whole genetic content. The previous genome sequencing studies indicated that finishing a genome sequenced by NGS, even bacteria, may require additional sequencing to fill the gaps, making the entire process very expensive. As such, several in silico approaches have been developed to optimize the genome assemblies and facilitate the finishing process. The present review aims to explore some free (open source, in many cases) tools that are available to facilitate genome finishing. |
publishDate |
2017 |
dc.date.none.fl_str_mv |
2017-09-01 |
dc.type.driver.fl_str_mv |
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://old.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572017000400553 |
url |
http://old.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572017000400553 |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
10.1590/1678-4685-gmb-2016-0230 |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.format.none.fl_str_mv |
text/html |
dc.publisher.none.fl_str_mv |
Sociedade Brasileira de Genética |
publisher.none.fl_str_mv |
Sociedade Brasileira de Genética |
dc.source.none.fl_str_mv |
Genetics and Molecular Biology v.40 n.3 2017 reponame:Genetics and Molecular Biology instname:Sociedade Brasileira de Genética (SBG) instacron:SBG |
instname_str |
Sociedade Brasileira de Genética (SBG) |
instacron_str |
SBG |
institution |
SBG |
reponame_str |
Genetics and Molecular Biology |
collection |
Genetics and Molecular Biology |
repository.name.fl_str_mv |
Genetics and Molecular Biology - Sociedade Brasileira de Genética (SBG) |
repository.mail.fl_str_mv |
||editor@gmb.org.br |
_version_ |
1752122387208339457 |