Uncovering patterns of the evolution of genomic sequence entropy and complexity

Detalhes bibliográficos
Autor(a) principal: Simões, Rafael Plana [UNESP]
Data de Publicação: 2021
Outros Autores: Wolf, Ivan Rodrigo [UNESP], Correa, Bruno Afonso [UNESP], Valente, Guilherme Targino [UNESP]
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Institucional da UNESP
Texto Completo: http://dx.doi.org/10.1007/s00438-020-01729-y
http://hdl.handle.net/11449/205550
Resumo: The lack of consensus concerning the biological meaning of entropy and complexity of genomes and the different ways to assess these data hamper conclusions concerning what are the causes of genomic entropy variation among species. This study aims to evaluate the entropy and complexity of genomic sequences of several species without using homologies to assess relationships among these variables and non-molecular data (e.g., the number of individuals) to seek a trigger of interspecific genomic entropy variation. The results indicate a relationship among genomic entropy, genome size, genomic complexity, and the number of individuals: species with a small number of individuals harbors large genome, and hence, low entropy but a higher complexity. We defined that the complexity of a genome relies on the entropy of each DNA segment within genome. Then, the entropy and complexity of a genome reflects its organization solely. Exons of vertebrates harbor smaller entropies than non-exon regions (likely by the repeats that accumulated from duplications), whereas other taxonomic groups do not present this pattern. Our findings suggest that small initial population might have defined current genomic entropy and complexity: actual genomes are less complex than ancestral ones. Besides, our data disagree with the relationship between phenotype and genomic entropies previously established. Finally, by establishing the relationship between genomic entropy/complexity with the number of individuals and genome size, under an evolutive perspective, ideas concerning the genomic variability may emerge.
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spelling Uncovering patterns of the evolution of genomic sequence entropy and complexityBiological complexityComparative genomicsGenomic complexityGenomic evolutionShannon entropy of genomesThe lack of consensus concerning the biological meaning of entropy and complexity of genomes and the different ways to assess these data hamper conclusions concerning what are the causes of genomic entropy variation among species. This study aims to evaluate the entropy and complexity of genomic sequences of several species without using homologies to assess relationships among these variables and non-molecular data (e.g., the number of individuals) to seek a trigger of interspecific genomic entropy variation. The results indicate a relationship among genomic entropy, genome size, genomic complexity, and the number of individuals: species with a small number of individuals harbors large genome, and hence, low entropy but a higher complexity. We defined that the complexity of a genome relies on the entropy of each DNA segment within genome. Then, the entropy and complexity of a genome reflects its organization solely. Exons of vertebrates harbor smaller entropies than non-exon regions (likely by the repeats that accumulated from duplications), whereas other taxonomic groups do not present this pattern. Our findings suggest that small initial population might have defined current genomic entropy and complexity: actual genomes are less complex than ancestral ones. Besides, our data disagree with the relationship between phenotype and genomic entropies previously established. Finally, by establishing the relationship between genomic entropy/complexity with the number of individuals and genome size, under an evolutive perspective, ideas concerning the genomic variability may emerge.Department of Bioprocess and Biotechnology São Paulo State University (Unesp), Avenida Universitária, 3780Department of Developmental Genetics Max-Planck-Institut für Herz- Und Lungenforschung, Ludwigstr., 43Department of Bioprocess and Biotechnology São Paulo State University (Unesp), Avenida Universitária, 3780Universidade Estadual Paulista (Unesp)Max-Planck-Institut für Herz- Und LungenforschungSimões, Rafael Plana [UNESP]Wolf, Ivan Rodrigo [UNESP]Correa, Bruno Afonso [UNESP]Valente, Guilherme Targino [UNESP]2021-06-25T10:17:17Z2021-06-25T10:17:17Z2021-03-01info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article289-298http://dx.doi.org/10.1007/s00438-020-01729-yMolecular Genetics and Genomics, v. 296, n. 2, p. 289-298, 2021.1617-46231617-4615http://hdl.handle.net/11449/20555010.1007/s00438-020-01729-y2-s2.0-85096911031Scopusreponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPengMolecular Genetics and Genomicsinfo:eu-repo/semantics/openAccess2021-10-23T14:48:21Zoai:repositorio.unesp.br:11449/205550Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462024-08-05T20:41:42.449673Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)false
dc.title.none.fl_str_mv Uncovering patterns of the evolution of genomic sequence entropy and complexity
title Uncovering patterns of the evolution of genomic sequence entropy and complexity
spellingShingle Uncovering patterns of the evolution of genomic sequence entropy and complexity
Simões, Rafael Plana [UNESP]
Biological complexity
Comparative genomics
Genomic complexity
Genomic evolution
Shannon entropy of genomes
title_short Uncovering patterns of the evolution of genomic sequence entropy and complexity
title_full Uncovering patterns of the evolution of genomic sequence entropy and complexity
title_fullStr Uncovering patterns of the evolution of genomic sequence entropy and complexity
title_full_unstemmed Uncovering patterns of the evolution of genomic sequence entropy and complexity
title_sort Uncovering patterns of the evolution of genomic sequence entropy and complexity
author Simões, Rafael Plana [UNESP]
author_facet Simões, Rafael Plana [UNESP]
Wolf, Ivan Rodrigo [UNESP]
Correa, Bruno Afonso [UNESP]
Valente, Guilherme Targino [UNESP]
author_role author
author2 Wolf, Ivan Rodrigo [UNESP]
Correa, Bruno Afonso [UNESP]
Valente, Guilherme Targino [UNESP]
author2_role author
author
author
dc.contributor.none.fl_str_mv Universidade Estadual Paulista (Unesp)
Max-Planck-Institut für Herz- Und Lungenforschung
dc.contributor.author.fl_str_mv Simões, Rafael Plana [UNESP]
Wolf, Ivan Rodrigo [UNESP]
Correa, Bruno Afonso [UNESP]
Valente, Guilherme Targino [UNESP]
dc.subject.por.fl_str_mv Biological complexity
Comparative genomics
Genomic complexity
Genomic evolution
Shannon entropy of genomes
topic Biological complexity
Comparative genomics
Genomic complexity
Genomic evolution
Shannon entropy of genomes
description The lack of consensus concerning the biological meaning of entropy and complexity of genomes and the different ways to assess these data hamper conclusions concerning what are the causes of genomic entropy variation among species. This study aims to evaluate the entropy and complexity of genomic sequences of several species without using homologies to assess relationships among these variables and non-molecular data (e.g., the number of individuals) to seek a trigger of interspecific genomic entropy variation. The results indicate a relationship among genomic entropy, genome size, genomic complexity, and the number of individuals: species with a small number of individuals harbors large genome, and hence, low entropy but a higher complexity. We defined that the complexity of a genome relies on the entropy of each DNA segment within genome. Then, the entropy and complexity of a genome reflects its organization solely. Exons of vertebrates harbor smaller entropies than non-exon regions (likely by the repeats that accumulated from duplications), whereas other taxonomic groups do not present this pattern. Our findings suggest that small initial population might have defined current genomic entropy and complexity: actual genomes are less complex than ancestral ones. Besides, our data disagree with the relationship between phenotype and genomic entropies previously established. Finally, by establishing the relationship between genomic entropy/complexity with the number of individuals and genome size, under an evolutive perspective, ideas concerning the genomic variability may emerge.
publishDate 2021
dc.date.none.fl_str_mv 2021-06-25T10:17:17Z
2021-06-25T10:17:17Z
2021-03-01
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
format article
status_str publishedVersion
dc.identifier.uri.fl_str_mv http://dx.doi.org/10.1007/s00438-020-01729-y
Molecular Genetics and Genomics, v. 296, n. 2, p. 289-298, 2021.
1617-4623
1617-4615
http://hdl.handle.net/11449/205550
10.1007/s00438-020-01729-y
2-s2.0-85096911031
url http://dx.doi.org/10.1007/s00438-020-01729-y
http://hdl.handle.net/11449/205550
identifier_str_mv Molecular Genetics and Genomics, v. 296, n. 2, p. 289-298, 2021.
1617-4623
1617-4615
10.1007/s00438-020-01729-y
2-s2.0-85096911031
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv Molecular Genetics and Genomics
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv 289-298
dc.source.none.fl_str_mv Scopus
reponame:Repositório Institucional da UNESP
instname:Universidade Estadual Paulista (UNESP)
instacron:UNESP
instname_str Universidade Estadual Paulista (UNESP)
instacron_str UNESP
institution UNESP
reponame_str Repositório Institucional da UNESP
collection Repositório Institucional da UNESP
repository.name.fl_str_mv Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)
repository.mail.fl_str_mv
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