Biblioteca Digital de VanguardiaDevelopment and characterization of SSR markers for Trichloris crinita using sequence data from related grass species
Trichloris crinita is among the most important native forage grasses in arid regions of America. Despite its importance, molecular resources and sequence data are extremely scarce in this species. In the present study, SSR markers were developed using available DNA sequences from grass taxa phylogen...
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| Formato: | Artículo |
| Lenguaje: | Inglés |
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Universidad Nacional de Cuyo. Facultad de Ciencias Agrarias
2018
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| Acceso en línea: | http://bdigital.uncu.edu.ar/10692 |
| _version_ | 1782342353484251136 |
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| author | Kozub, Perla Carolina Barboza, Karina Cavagnaro, Juan Bruno Cavagnaro, Pablo Federico |
| author_facet | Kozub, Perla Carolina Barboza, Karina Cavagnaro, Juan Bruno Cavagnaro, Pablo Federico |
| author_sort | Kozub, Perla Carolina |
| collection | Repositorio |
| description | Trichloris crinita is among the most important native forage grasses in arid regions
of America. Despite its importance, molecular resources and sequence data are
extremely scarce in this species. In the present study, SSR markers were developed
using available DNA sequences from grass taxa phylogenetically-related to Trichloris
(Eleusine coracana, Cynodon dactylon and ‘Cynodon dactylon x Cynodon transvaalensis’).
Marker transferability was evaluated in a panel of eight T. crinita accessions and five
closely-related species. Of the 105 SSR primer pairs evaluated, 16 amplified products
of expected size in T. crinita, whereas transferability to other grass species ranged from
12 (in Chloris castilloniana) to 28 SSRs (in Eleusine coracana). Six of the 16 SSR markers
successfully transferred to T. crinita (37.5%) were polymorphic, and were further used
to assess genetic diversity in eight T. crinita accessions. The analysis revealed a total of
23 SSR alleles (3.83 alleles/locus), allowing the discrimination of all T. crinita accessions,
with pair-wise genetic similarities ranging from 0.35 to 0.81 (Jaccard coefficient). Mean
(and range) values for observed (Ho) and expected heterozygosity (He) were 0.53
(0.0-1.0) and 0.63 (0.48-0.79), respectively. |
| format | Artículo |
| id | uncu-10692 |
| institution | Biblioteca Digital - UNCUYO |
| language | Inglés |
| publishDate | 2018 |
| publisher | Universidad Nacional de Cuyo. Facultad de Ciencias Agrarias
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| record_format | ojs |
| spelling | uncu-106922018-06-27T16:37:44Z Development and characterization of SSR markers for Trichloris crinita using sequence data from related grass species Desarrollo y caracterización de marcadores moleculares SSR para Trichloris crinita usando secuencias de gramíneas filogenéticamente cercanas Kozub, Perla Carolina Barboza, Karina Cavagnaro, Juan Bruno Cavagnaro, Pablo Federico Trichloris crinita Gramíneas Gramíneas forrajeras Diversidad genética como recurso Microsatélites Chloridoideae Marcadores genéticos Forage grass Genetic diversity Marker transferability Microsatellites Trichloris crinita is among the most important native forage grasses in arid regions of America. Despite its importance, molecular resources and sequence data are extremely scarce in this species. In the present study, SSR markers were developed using available DNA sequences from grass taxa phylogenetically-related to Trichloris (Eleusine coracana, Cynodon dactylon and ‘Cynodon dactylon x Cynodon transvaalensis’). Marker transferability was evaluated in a panel of eight T. crinita accessions and five closely-related species. Of the 105 SSR primer pairs evaluated, 16 amplified products of expected size in T. crinita, whereas transferability to other grass species ranged from 12 (in Chloris castilloniana) to 28 SSRs (in Eleusine coracana). Six of the 16 SSR markers successfully transferred to T. crinita (37.5%) were polymorphic, and were further used to assess genetic diversity in eight T. crinita accessions. The analysis revealed a total of 23 SSR alleles (3.83 alleles/locus), allowing the discrimination of all T. crinita accessions, with pair-wise genetic similarities ranging from 0.35 to 0.81 (Jaccard coefficient). Mean (and range) values for observed (Ho) and expected heterozygosity (He) were 0.53 (0.0-1.0) and 0.63 (0.48-0.79), respectively. Trichloris crinita es una importante gramínea forrajera, nativa de regiones áridas del continente americano. A pesar de su importancia, no existen herramientas moleculares ni secuencias nucleotídicas disponibles para esta especie. En este estudio, se desarrollaron marcadores moleculares SSR (“simple sequence repeats") a partir de secuencias nucleotídicas de especies filogenéticamente cercanas a Trichloris (Eleusine coracana, Cynodon dactylon y ‘Cynodon dactylon x Cynodon transvaalensis’) y se evaluó su transferibilidad en ocho accesiones de T. crinita y cinco especies de gramíneas cercanamente emparentadas. De los 105 pares de cebadores evaluados, 16 amplificaron productos del tamaño esperado en T. crinita, mientras que la transferibilidad a otras especies varió entre 12 (en Chloris castilloniana) y 28 SSRs (en Eleusine coracana). De los 16 SSRs transferibles a T. crinita, seis fueron polimórficos y se utilizaron para analizar el grado de diversidad genética en ocho accesiones de esta especie. El análisis reveló 23 alelos, los cuales permitieron diferenciar todas las accesiones de T. crinita, con valores de similitud genética entre pares de accesiones de 0,35 a 0,81 (Jaccard). Se obtuvieron valores medios de heterocigosidad observada y esperada de 0,53 y 0,63 respectivamente. Fil: Kozub, Perla Carolina. Universidad Nacional de Cuyo. Facultad de Ciencias Agrarias Fil: Barboza, Karina. CONICET (Consejo Nacional de Investigaciones Científicas y Técnicas) - Universidad Nacional de Cuyo Fil: Cavagnaro, Juan Bruno. Universidad Nacional de Cuyo. Facultad de Ciencias Agrarias Fil: Cavagnaro, Pablo Federico. CONICET (Consejo Nacional de Investigaciones Científicas y Técnicas) - Universidad Nacional de Cuyo Universidad Nacional de Cuyo. Facultad de Ciencias Agrarias 78 Revista de la Facultad de Ciencias Agrarias Vol. 50, no. 1 Revista de la Facultad de Ciencias Agrarias, Vol. 50, no. 1 2018-06-01 eng Inglés http://bdigital.uncu.edu.ar/10654 info:eu-repo/semantics/openAccess http://creativecommons.org/licenses/by/2.5/ar/ article info:ar-repo/semantics/artículo info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion application/pdf Universidad Nacional de Cuyo. Facultad de Ciencias Agrarias http://bdigital.uncu.edu.ar/10692 |
| spellingShingle | Trichloris crinita Gramíneas Gramíneas forrajeras Diversidad genética como recurso Microsatélites Chloridoideae Marcadores genéticos Forage grass Genetic diversity Marker transferability Microsatellites Kozub, Perla Carolina Barboza, Karina Cavagnaro, Juan Bruno Cavagnaro, Pablo Federico Development and characterization of SSR markers for Trichloris crinita using sequence data from related grass species |
| title | Development and characterization of SSR markers for Trichloris crinita using sequence data from related grass species
|
| title_full | Development and characterization of SSR markers for Trichloris crinita using sequence data from related grass species
|
| title_fullStr | Development and characterization of SSR markers for Trichloris crinita using sequence data from related grass species
|
| title_full_unstemmed | Development and characterization of SSR markers for Trichloris crinita using sequence data from related grass species
|
| title_short | Development and characterization of SSR markers for Trichloris crinita using sequence data from related grass species
|
| title_sort | development and characterization of ssr markers for trichloris crinita using sequence data from related grass species |
| topic | Trichloris crinita Gramíneas Gramíneas forrajeras Diversidad genética como recurso Microsatélites Chloridoideae Marcadores genéticos Forage grass Genetic diversity Marker transferability Microsatellites |
| url | http://bdigital.uncu.edu.ar/10692 |