Extreme differences in rates of molecular evolution of foraminifera revealed by comparison of ribosomal DNA sequences and the fossil record
Foraminifera have one of the best known fossil records among the unicellular eukaryotes. However, the origin and phylogenetic relationships of the extant foraminiferal lineages are poorly understood. To test the current paleontological hypotheses on evolution of foraminifera, we sequenced about 1,00...
Published in: | Molecular Biology and Evolution |
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ftunivnantes:oai:HAL:hal-00434978v1 2023-05-15T18:00:36+02:00 Extreme differences in rates of molecular evolution of foraminifera revealed by comparison of ribosomal DNA sequences and the fossil record Pawlowski, J. Bolivar, I. Fahrni, J.F. de Vargas, C. Gouy, Manolo Zaninetti, L. Bioinformatique, phylogénie et génomique évolutive (BPGE) Département PEGASE LBBE (PEGASE) Laboratoire de Biométrie et Biologie Evolutive - UMR 5558 (LBBE) Université Claude Bernard Lyon 1 (UCBL) Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL) Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Laboratoire de Biométrie et Biologie Evolutive - UMR 5558 (LBBE) Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS) 1997-05 https://hal.archives-ouvertes.fr/hal-00434978 https://doi.org/10.1093/oxfordjournals.molbev.a025786 en eng HAL CCSD Oxford University Press (OUP) info:eu-repo/semantics/altIdentifier/doi/10.1093/oxfordjournals.molbev.a025786 hal-00434978 https://hal.archives-ouvertes.fr/hal-00434978 doi:10.1093/oxfordjournals.molbev.a025786 ISSN: 0737-4038 EISSN: 1537-1719 Molecular Biology and Evolution https://hal.archives-ouvertes.fr/hal-00434978 Molecular Biology and Evolution, Oxford University Press (OUP), 1997, 14 (5), pp.498-505. ⟨10.1093/oxfordjournals.molbev.a025786⟩ [SDV.OT]Life Sciences [q-bio]/Other [q-bio.OT] info:eu-repo/semantics/article Journal articles 1997 ftunivnantes https://doi.org/10.1093/oxfordjournals.molbev.a025786 2022-10-18T22:58:10Z Foraminifera have one of the best known fossil records among the unicellular eukaryotes. However, the origin and phylogenetic relationships of the extant foraminiferal lineages are poorly understood. To test the current paleontological hypotheses on evolution of foraminifera, we sequenced about 1,000 base pairs from the 3' end of the small subunit rRNA gene (SSU rDNA) in 22 species representing all major taxonomic groups. Phylogenies were derived using neighbor-joining, maximum-parsimony, and maximum-likelihood methods. All analyses confirm the monophyletic origin of foraminifera. Evolutionary relationships within foraminifera inferred from rDNA sequences, however, depend on the method of tree building and on the choice of analyzed sites. In particular, the position of planktonic foraminifera shows important variations. We have shown that these changes result from the extremely high rate of rDNA evolution in this group. By comparing the number of substitutions with the divergence times inferred from the fossil record, we have estimated that the rate of rDNA evolution in planktonic foraminifera is 50 to 100 times faster than in some benthic foraminifera. The use of the maximum-likelihood method and limitation of analyzed sites to the most conserved parts of the SSU rRNA molecule render molecular and paleontological data generally congruent. Article in Journal/Newspaper Planktonic foraminifera Université de Nantes: HAL-UNIV-NANTES Molecular Biology and Evolution 14 5 498 505 |
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Université de Nantes: HAL-UNIV-NANTES |
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ftunivnantes |
language |
English |
topic |
[SDV.OT]Life Sciences [q-bio]/Other [q-bio.OT] |
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[SDV.OT]Life Sciences [q-bio]/Other [q-bio.OT] Pawlowski, J. Bolivar, I. Fahrni, J.F. de Vargas, C. Gouy, Manolo Zaninetti, L. Extreme differences in rates of molecular evolution of foraminifera revealed by comparison of ribosomal DNA sequences and the fossil record |
topic_facet |
[SDV.OT]Life Sciences [q-bio]/Other [q-bio.OT] |
description |
Foraminifera have one of the best known fossil records among the unicellular eukaryotes. However, the origin and phylogenetic relationships of the extant foraminiferal lineages are poorly understood. To test the current paleontological hypotheses on evolution of foraminifera, we sequenced about 1,000 base pairs from the 3' end of the small subunit rRNA gene (SSU rDNA) in 22 species representing all major taxonomic groups. Phylogenies were derived using neighbor-joining, maximum-parsimony, and maximum-likelihood methods. All analyses confirm the monophyletic origin of foraminifera. Evolutionary relationships within foraminifera inferred from rDNA sequences, however, depend on the method of tree building and on the choice of analyzed sites. In particular, the position of planktonic foraminifera shows important variations. We have shown that these changes result from the extremely high rate of rDNA evolution in this group. By comparing the number of substitutions with the divergence times inferred from the fossil record, we have estimated that the rate of rDNA evolution in planktonic foraminifera is 50 to 100 times faster than in some benthic foraminifera. The use of the maximum-likelihood method and limitation of analyzed sites to the most conserved parts of the SSU rRNA molecule render molecular and paleontological data generally congruent. |
author2 |
Bioinformatique, phylogénie et génomique évolutive (BPGE) Département PEGASE LBBE (PEGASE) Laboratoire de Biométrie et Biologie Evolutive - UMR 5558 (LBBE) Université Claude Bernard Lyon 1 (UCBL) Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL) Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Laboratoire de Biométrie et Biologie Evolutive - UMR 5558 (LBBE) Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS) |
format |
Article in Journal/Newspaper |
author |
Pawlowski, J. Bolivar, I. Fahrni, J.F. de Vargas, C. Gouy, Manolo Zaninetti, L. |
author_facet |
Pawlowski, J. Bolivar, I. Fahrni, J.F. de Vargas, C. Gouy, Manolo Zaninetti, L. |
author_sort |
Pawlowski, J. |
title |
Extreme differences in rates of molecular evolution of foraminifera revealed by comparison of ribosomal DNA sequences and the fossil record |
title_short |
Extreme differences in rates of molecular evolution of foraminifera revealed by comparison of ribosomal DNA sequences and the fossil record |
title_full |
Extreme differences in rates of molecular evolution of foraminifera revealed by comparison of ribosomal DNA sequences and the fossil record |
title_fullStr |
Extreme differences in rates of molecular evolution of foraminifera revealed by comparison of ribosomal DNA sequences and the fossil record |
title_full_unstemmed |
Extreme differences in rates of molecular evolution of foraminifera revealed by comparison of ribosomal DNA sequences and the fossil record |
title_sort |
extreme differences in rates of molecular evolution of foraminifera revealed by comparison of ribosomal dna sequences and the fossil record |
publisher |
HAL CCSD |
publishDate |
1997 |
url |
https://hal.archives-ouvertes.fr/hal-00434978 https://doi.org/10.1093/oxfordjournals.molbev.a025786 |
genre |
Planktonic foraminifera |
genre_facet |
Planktonic foraminifera |
op_source |
ISSN: 0737-4038 EISSN: 1537-1719 Molecular Biology and Evolution https://hal.archives-ouvertes.fr/hal-00434978 Molecular Biology and Evolution, Oxford University Press (OUP), 1997, 14 (5), pp.498-505. ⟨10.1093/oxfordjournals.molbev.a025786⟩ |
op_relation |
info:eu-repo/semantics/altIdentifier/doi/10.1093/oxfordjournals.molbev.a025786 hal-00434978 https://hal.archives-ouvertes.fr/hal-00434978 doi:10.1093/oxfordjournals.molbev.a025786 |
op_doi |
https://doi.org/10.1093/oxfordjournals.molbev.a025786 |
container_title |
Molecular Biology and Evolution |
container_volume |
14 |
container_issue |
5 |
container_start_page |
498 |
op_container_end_page |
505 |
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1766169768005468160 |