Characterisation and transferability of transcriptomic microsatellite markers for Nothofagus species

Autores
El Mujtar, Veronica Andrea; Lopez, Micaela; Amalfi, Sabrina; Pomponio, Maria Florencia; Marcucci Poltri, Susana Noemi; Torales, Susana Leonor
Año de publicación
2017
Idioma
inglés
Tipo de recurso
artículo
Estado
versión aceptada
Descripción
Discriminant molecular markers are required for research on population genetics, as well as evolutionary studies involving identification of hybrids and parental species, or detection of the genome regions under selection. We provide a set of 27 transcriptomic microsatellite markers (SSRs) for South American Nothofagus species, derived from 73 Nothofagus alpina (=N. nervosa) annotated unigenes. Rates of cross-amplification ranged from 22% to 37%. Genetic characterisation of 22 transcriptomic SSRs for N. alpina and N. obliqua reveals low genetic variability, due to the general occurrence of one major allele at each locus, and high specificity, with few alleles shared between species (14%). At inter-species level 95% of loci were discriminant, with a total G’’st over loci of 0.9, indicating that alleles were mostly fixed for all loci in both species. At intraspecies level the number of markers with significant differentiation was 2.5 times higher for N. obliqua than for N. alpina populations. Moreover, transcriptomic SSRs showed higher performance compared with published anonymous microsatellites isolated from genome sequences without annotation. This set of transcriptomic microsatellites will be useful to the scientific community working on conservation and evolutionary aspects of Nothofagus species.
Inst. de Biotecnología
Fil: El Mujtar, Verónica Andrea. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimenta Agropecuaria Pergamino. Unidad de Genética Ecológica y Mejoramiento Forestal; Argentina
Fil: Lopez, Marta Beatriz. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Recursos Biológicos; Argentina
Fil: Amalfi, Sabrina. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina
Fil: Pomponio, Maria Florencia. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Recursos Biológicos; Argentina
Fil: Marcucci Poltri, Susana Noemi. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina
Fil: Torales, Susana Leonor. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Recursos Biológicos; Argentina
Fuente
New Zealand journal of botany 55 (3) : 1-10. (2017)
Materia
Genética
Nothofagus
Marcadores Genéticos
Microsatélites
Genetics
Genetic Markers
Microsatellites
Nivel de accesibilidad
acceso restringido
Condiciones de uso
Repositorio
INTA Digital (INTA)
Institución
Instituto Nacional de Tecnología Agropecuaria
OAI Identificador
oai:localhost:20.500.12123/1468
Acceder
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spelling Characterisation and transferability of transcriptomic microsatellite markers for Nothofagus speciesEl Mujtar, Veronica AndreaLopez, MicaelaAmalfi, SabrinaPomponio, Maria FlorenciaMarcucci Poltri, Susana NoemiTorales, Susana LeonorGenéticaNothofagusMarcadores GenéticosMicrosatélitesGeneticsGenetic MarkersMicrosatellitesDiscriminant molecular markers are required for research on population genetics, as well as evolutionary studies involving identification of hybrids and parental species, or detection of the genome regions under selection. We provide a set of 27 transcriptomic microsatellite markers (SSRs) for South American Nothofagus species, derived from 73 Nothofagus alpina (=N. nervosa) annotated unigenes. Rates of cross-amplification ranged from 22% to 37%. Genetic characterisation of 22 transcriptomic SSRs for N. alpina and N. obliqua reveals low genetic variability, due to the general occurrence of one major allele at each locus, and high specificity, with few alleles shared between species (14%). At inter-species level 95% of loci were discriminant, with a total G’’st over loci of 0.9, indicating that alleles were mostly fixed for all loci in both species. At intraspecies level the number of markers with significant differentiation was 2.5 times higher for N. obliqua than for N. alpina populations. Moreover, transcriptomic SSRs showed higher performance compared with published anonymous microsatellites isolated from genome sequences without annotation. This set of transcriptomic microsatellites will be useful to the scientific community working on conservation and evolutionary aspects of Nothofagus species.Inst. de BiotecnologíaFil: El Mujtar, Verónica Andrea. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimenta Agropecuaria Pergamino. Unidad de Genética Ecológica y Mejoramiento Forestal; ArgentinaFil: Lopez, Marta Beatriz. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Recursos Biológicos; ArgentinaFil: Amalfi, Sabrina. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; ArgentinaFil: Pomponio, Maria Florencia. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Recursos Biológicos; ArgentinaFil: Marcucci Poltri, Susana Noemi. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; ArgentinaFil: Torales, Susana Leonor. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Recursos Biológicos; Argentina2017-10-12T11:36:35Z2017-10-12T11:36:35Z2017-07info:eu-repo/semantics/articleinfo:eu-repo/semantics/acceptedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfhttp://hdl.handle.net/20.500.12123/1468http://www.tandfonline.com/doi/abs/10.1080/0028825X.2017.1340310?journalCode=tnzb200028-825X (Print)1175-8643 (Online)http://dx.doi.org/10.1080/0028825X.2017.1340310New Zealand journal of botany 55 (3) : 1-10. (2017)reponame:INTA Digital (INTA)instname:Instituto Nacional de Tecnología Agropecuariaenginfo:eu-repo/semantics/restrictedAccess2025-09-04T09:47:05Zoai:localhost:20.500.12123/1468instacron:INTAInstitucionalhttp://repositorio.inta.gob.ar/Organismo científico-tecnológicoNo correspondehttp://repositorio.inta.gob.ar/oai/requesttripaldi.nicolas@inta.gob.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:l2025-09-04 09:47:06.386INTA Digital (INTA) - Instituto Nacional de Tecnología Agropecuariafalse
dc.title.none.fl_str_mv Characterisation and transferability of transcriptomic microsatellite markers for Nothofagus species
title Characterisation and transferability of transcriptomic microsatellite markers for Nothofagus species
spellingShingle Characterisation and transferability of transcriptomic microsatellite markers for Nothofagus species
El Mujtar, Veronica Andrea
Genética
Nothofagus
Marcadores Genéticos
Microsatélites
Genetics
Genetic Markers
Microsatellites
title_short Characterisation and transferability of transcriptomic microsatellite markers for Nothofagus species
title_full Characterisation and transferability of transcriptomic microsatellite markers for Nothofagus species
title_fullStr Characterisation and transferability of transcriptomic microsatellite markers for Nothofagus species
title_full_unstemmed Characterisation and transferability of transcriptomic microsatellite markers for Nothofagus species
title_sort Characterisation and transferability of transcriptomic microsatellite markers for Nothofagus species
dc.creator.none.fl_str_mv El Mujtar, Veronica Andrea
Lopez, Micaela
Amalfi, Sabrina
Pomponio, Maria Florencia
Marcucci Poltri, Susana Noemi
Torales, Susana Leonor
author El Mujtar, Veronica Andrea
author_facet El Mujtar, Veronica Andrea
Lopez, Micaela
Amalfi, Sabrina
Pomponio, Maria Florencia
Marcucci Poltri, Susana Noemi
Torales, Susana Leonor
author_role author
author2 Lopez, Micaela
Amalfi, Sabrina
Pomponio, Maria Florencia
Marcucci Poltri, Susana Noemi
Torales, Susana Leonor
author2_role author
author
author
author
author
dc.subject.none.fl_str_mv Genética
Nothofagus
Marcadores Genéticos
Microsatélites
Genetics
Genetic Markers
Microsatellites
topic Genética
Nothofagus
Marcadores Genéticos
Microsatélites
Genetics
Genetic Markers
Microsatellites
dc.description.none.fl_txt_mv Discriminant molecular markers are required for research on population genetics, as well as evolutionary studies involving identification of hybrids and parental species, or detection of the genome regions under selection. We provide a set of 27 transcriptomic microsatellite markers (SSRs) for South American Nothofagus species, derived from 73 Nothofagus alpina (=N. nervosa) annotated unigenes. Rates of cross-amplification ranged from 22% to 37%. Genetic characterisation of 22 transcriptomic SSRs for N. alpina and N. obliqua reveals low genetic variability, due to the general occurrence of one major allele at each locus, and high specificity, with few alleles shared between species (14%). At inter-species level 95% of loci were discriminant, with a total G’’st over loci of 0.9, indicating that alleles were mostly fixed for all loci in both species. At intraspecies level the number of markers with significant differentiation was 2.5 times higher for N. obliqua than for N. alpina populations. Moreover, transcriptomic SSRs showed higher performance compared with published anonymous microsatellites isolated from genome sequences without annotation. This set of transcriptomic microsatellites will be useful to the scientific community working on conservation and evolutionary aspects of Nothofagus species.
Inst. de Biotecnología
Fil: El Mujtar, Verónica Andrea. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimenta Agropecuaria Pergamino. Unidad de Genética Ecológica y Mejoramiento Forestal; Argentina
Fil: Lopez, Marta Beatriz. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Recursos Biológicos; Argentina
Fil: Amalfi, Sabrina. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina
Fil: Pomponio, Maria Florencia. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Recursos Biológicos; Argentina
Fil: Marcucci Poltri, Susana Noemi. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina
Fil: Torales, Susana Leonor. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Recursos Biológicos; Argentina
description Discriminant molecular markers are required for research on population genetics, as well as evolutionary studies involving identification of hybrids and parental species, or detection of the genome regions under selection. We provide a set of 27 transcriptomic microsatellite markers (SSRs) for South American Nothofagus species, derived from 73 Nothofagus alpina (=N. nervosa) annotated unigenes. Rates of cross-amplification ranged from 22% to 37%. Genetic characterisation of 22 transcriptomic SSRs for N. alpina and N. obliqua reveals low genetic variability, due to the general occurrence of one major allele at each locus, and high specificity, with few alleles shared between species (14%). At inter-species level 95% of loci were discriminant, with a total G’’st over loci of 0.9, indicating that alleles were mostly fixed for all loci in both species. At intraspecies level the number of markers with significant differentiation was 2.5 times higher for N. obliqua than for N. alpina populations. Moreover, transcriptomic SSRs showed higher performance compared with published anonymous microsatellites isolated from genome sequences without annotation. This set of transcriptomic microsatellites will be useful to the scientific community working on conservation and evolutionary aspects of Nothofagus species.
publishDate 2017
dc.date.none.fl_str_mv 2017-10-12T11:36:35Z
2017-10-12T11:36:35Z
2017-07
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/acceptedVersion
http://purl.org/coar/resource_type/c_6501
info:ar-repo/semantics/articulo
format article
status_str acceptedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/20.500.12123/1468
http://www.tandfonline.com/doi/abs/10.1080/0028825X.2017.1340310?journalCode=tnzb20
0028-825X (Print)
1175-8643 (Online)
http://dx.doi.org/10.1080/0028825X.2017.1340310
url http://hdl.handle.net/20.500.12123/1468
http://www.tandfonline.com/doi/abs/10.1080/0028825X.2017.1340310?journalCode=tnzb20
http://dx.doi.org/10.1080/0028825X.2017.1340310
identifier_str_mv 0028-825X (Print)
1175-8643 (Online)
dc.language.none.fl_str_mv eng
language eng
dc.rights.none.fl_str_mv info:eu-repo/semantics/restrictedAccess
eu_rights_str_mv restrictedAccess
dc.format.none.fl_str_mv application/pdf
dc.source.none.fl_str_mv New Zealand journal of botany 55 (3) : 1-10. (2017)
reponame:INTA Digital (INTA)
instname:Instituto Nacional de Tecnología Agropecuaria
reponame_str INTA Digital (INTA)
collection INTA Digital (INTA)
instname_str Instituto Nacional de Tecnología Agropecuaria
repository.name.fl_str_mv INTA Digital (INTA) - Instituto Nacional de Tecnología Agropecuaria
repository.mail.fl_str_mv tripaldi.nicolas@inta.gob.ar
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score 12.623145

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