| |
|
|
|
Registro completo
|
|
Biblioteca (s) : |
INIA Las Brujas. |
|
Fecha : |
13/11/2015 |
|
Actualizado : |
09/10/2019 |
|
Tipo de producción científica : |
Artículos en Revistas Indexadas Internacionales |
|
Autor : |
GARAYCOCHEA, S.; SPERANZA, P.; ALVAREZ-VALIN, F. |
|
Afiliación : |
SILVIA RAQUEL GARAYCOCHEA SOLSONA, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay. |
|
Título : |
A strategy to recover a high-quality, complete plastid sequence from low-coverage whole-genome sequencing. |
|
Fecha de publicación : |
2015 |
|
Fuente / Imprenta : |
Applications in Plant Sciences, 2015, v.3, no.10, Article number 1500022. OPEN ACCESS |
|
ISSN : |
2168-0450 |
|
DOI : |
10.3732/apps.1500022 |
|
Idioma : |
Inglés |
|
Notas : |
Article history: First published: 12 October 2015.
The authors thank Fabián Capdeville for his important support at the beginning of this work. This project received financial support from the Instituto Nacional de Investigación Agropecuaria (INIA), Uruguay. S.G. was the recipient of a Master's degree fellowship awarded by Agencia Nacional de Investigación e Innovación (ANII), Uruguay. F.A.?V. and P.S. are researchers from Sistema Nacional de Investigadores (ANII, Uruguay). |
|
Contenido : |
ABSTRACT.
Premise of the study: We developed a bioinformatic strategy to recover and assemble a chloroplast genome using data derived from low-coverage 454 GS FLX/Roche whole-genome sequencing. Methods: A comparative genomics approach was applied to obtain the complete chloroplast genome from a weedy biotype of rice from Uruguay. We also applied appropriate filters to discriminate reads representing novel DNA transfer events between the chloroplast and nuclear genomes. Results: From a set of 295,159 reads (96 Mb data), we assembled the chloroplast genome into two contigs. This weedy rice was classified based on 23 polymorphic regions identified by comparison with reference chloroplast genomes. We detected recent and past events of genetic material transfer between the chloroplast and nuclear genomes and estimated their occurrence frequency. Discussion: We obtained a high-quality complete chloroplast genome sequence from low-coverage sequencing data. Intergenome DNA transfer appears to be more frequent than previously thought.
© 2015 Garaycochea et al. Published by the Botanical Society of America. This work is licensed under a Creative Commons Attribution License (CC-BY-NC-SA). |
|
Palabras claves : |
Bioinformatic methods; BIOINFORMÁTICA; Chloroplast genome; Next-generation; Sequencing; Weedy rice. |
|
Thesagro : |
ARROZ; BIOLOGÍA; CIENCIA DE INFORMACIÓN; ORYZA SATIVA. |
|
Asunto categoría : |
F30 Genética vegetal y fitomejoramiento |
|
URL : |
http://www.ainfo.inia.uy/digital/bitstream/item/5184/1/Garaycochea-S.-2015.-Applications-in-plant-Sciences.pdf
https://bsapubs.onlinelibrary.wiley.com/doi/pdf/10.3732/apps.1500022
|
|
Marc : |
LEADER 02579naa a2200301 a 4500
001 1053875
005 2019-10-09
008 2015 bl uuuu u00u1 u #d
022 $a2168-0450
024 7 $a10.3732/apps.1500022$2DOI
100 1 $aGARAYCOCHEA, S.
245 $aA strategy to recover a high-quality, complete plastid sequence from low-coverage whole-genome sequencing.$h[electronic resource]
260 $c2015
500 $aArticle history: First published: 12 October 2015. The authors thank Fabián Capdeville for his important support at the beginning of this work. This project received financial support from the Instituto Nacional de Investigación Agropecuaria (INIA), Uruguay. S.G. was the recipient of a Master's degree fellowship awarded by Agencia Nacional de Investigación e Innovación (ANII), Uruguay. F.A.?V. and P.S. are researchers from Sistema Nacional de Investigadores (ANII, Uruguay).
520 $aABSTRACT. Premise of the study: We developed a bioinformatic strategy to recover and assemble a chloroplast genome using data derived from low-coverage 454 GS FLX/Roche whole-genome sequencing. Methods: A comparative genomics approach was applied to obtain the complete chloroplast genome from a weedy biotype of rice from Uruguay. We also applied appropriate filters to discriminate reads representing novel DNA transfer events between the chloroplast and nuclear genomes. Results: From a set of 295,159 reads (96 Mb data), we assembled the chloroplast genome into two contigs. This weedy rice was classified based on 23 polymorphic regions identified by comparison with reference chloroplast genomes. We detected recent and past events of genetic material transfer between the chloroplast and nuclear genomes and estimated their occurrence frequency. Discussion: We obtained a high-quality complete chloroplast genome sequence from low-coverage sequencing data. Intergenome DNA transfer appears to be more frequent than previously thought. © 2015 Garaycochea et al. Published by the Botanical Society of America. This work is licensed under a Creative Commons Attribution License (CC-BY-NC-SA).
650 $aARROZ
650 $aBIOLOGÍA
650 $aCIENCIA DE INFORMACIÓN
650 $aORYZA SATIVA
653 $aBioinformatic methods
653 $aBIOINFORMÁTICA
653 $aChloroplast genome
653 $aNext-generation
653 $aSequencing
653 $aWeedy rice
700 1 $aSPERANZA, P.
700 1 $aALVAREZ-VALIN, F.
773 $tApplications in Plant Sciences, 2015$gv.3, no.10, Article number 1500022. OPEN ACCESS
Descargar
Esconder MarcPresentar Marc Completo |
|
Registro original : |
INIA Las Brujas (LB) |
|
|
Biblioteca
|
Identificación
|
Origen
|
Tipo / Formato
|
Clasificación
|
Cutter
|
Registro
|
Volumen
|
Estado
|
Volver
|
|
|
| Registros recuperados : 23 | |
| 9. |  | ARRUABARRENA, A.; SALVO, M.; GIAMBIASI, M.; VICENTE, E.; GIMÉNEZ, G.; SPERANZA, P. Caracterización genética preliminar del Programa de Mejoramiento de Frutilla de INIA, Uruguay. MV 34 - COMUNICACIONES LIBRES - MV. MEJORAMIENTO VEGETAL In: JOURNAL OF BASIC & APPLIED GENETICS, 2016, Vol.27, Iss. 1 (Supp.). XVI LATIN AMERICAN CONGRESS OF GENETICS, IV CONGRESS OF THE URUGUAYAN SOCIETY OF GENETICS, XLIX ANNUAL MEETING OF THE GENETICS SOCIETY OF CHILE, XLV ARGENTINE CONGRESS OF GENETICS, 9-12 October 2016. PROCEEDINGS. Montevideo (Uruguay): SAG, 2016. p. 297| Tipo: Trabajos en Congresos/Conferencias |
| Biblioteca(s): INIA Las Brujas. |
|    |
| 10. | | SANDRO, P.; REBOLLO, I.; GAIERO, P.; VAIO, M.; VILARO, F.; SPERANZA, P. Diseño de microsatélites para Solanum commersonii a partir de información genómica. GGM 44 - COMUNICACIONES LIBRES - GGM. GENÓMICA Y GENÉTICA MOLECULAR In: JOURNAL OF BASIC & APPLIED GENETICS, 2016, Vol.27, Iss. 1 (Supp.). XVI LATIN AMERICAN CONGRESS OF GENETICS, IV CONGRESS OF THE URUGUAYAN SOCIETY OF GENETICS, XLIX ANNUAL MEETING OF THE GENETICS SOCIETY OF CHILE, XLV ARGENTINE CONGRESS OF GENETICS, 9-12 October 2016. PROCEEDINGS. Montevideo (Uruguay): SAG, 2016. p. 276| Tipo: Trabajos en Congresos/Conferencias |
| Biblioteca(s): INIA Las Brujas. |
| |
| 11. | | GAIERO, P.; VAN DE BELT, J.; VILARO, F.; SCHRANZ, M. E.; SPERANZA, P.; DE JONG, H. Collinearity between potato (Solanum tuberosum L.) and wild relatives assessed by comparative cytogenetic mapping. Genome, 2016, online 14 November 2016, 10.1139/gen-2016-0150 Received July 25, 2016. // Published on the web 14 November 2016.| Tipo: Artículos en Revistas Indexadas Internacionales | Circulación / Nivel : Internacional - -- |
| Biblioteca(s): INIA Las Brujas. |
|  |
| 13. | | VAIO, M.; GAIERO, P.; VILARO, F.; SPERANZA, P.; DE JONG, H. The repetitive fraction in the genomes of wild potato relatives from Solanum section Petota. GGM 38 - COMUNICACIONES LIBRES - GGM. GENÓMICA Y GENÉTICA MOLECULAR In: JOURNAL OF BASIC & APPLIED GENETICS, 2016, Vol.27, Iss. 1 (Supp.). XVI LATIN AMERICAN CONGRESS OF GENETICS, IV CONGRESS OF THE URUGUAYAN SOCIETY OF GENETICS, XLIX ANNUAL MEETING OF THE GENETICS SOCIETY OF CHILE, XLV ARGENTINE CONGRESS OF GENETICS, 9-12 October 2016. PROCEEDINGS. Montevideo (Uruguay): SAG, 2016. P. 273| Tipo: Trabajos en Congresos/Conferencias |
| Biblioteca(s): INIA Las Brujas. |
| |
| 14. | | ANDINO, M.; GAIERO, P.; GONZÁLEZ-BARRIOS, P.; GALVÁN, G.; VILARÓ, F.; SPERANZA, P. Potato introgressive hybridisation breeding for bacterial wilt resistance using Solanum commersonii Dun. as Donor: genetic and agronomic characterisation of a backcross 3 progeny. Potato Research, 2021. Doi: https://doi.org/10.1007/s11540-021-09512-1 Article history: Received 30 October 2020; Accepted 26 April 2021; Published Online 17 June 2021.
Corresponding author: Gaiero, P., Facultad de Agronomía, Universidad de la República, Garzón 780, Montevideo, Uruguay;...| Tipo: Artículos en Revistas Indexadas Internacionales | Circulación / Nivel : Internacional - -- |
| Biblioteca(s): INIA Las Brujas. |
| |
| 15. | | ROSS, S.; PECHI, E.; SPERONI, G.; VIGNALE, B.; SPERANZA, P.; CASTILLO, A.; CABRERA, D. In vitro rooting of Acca sellowiana microshoots. (Conference Paper) Acta Horticulturae, 31 March 2017, Nº 1155, Pages 537-541. (Acta Horticulturae; 1155). Article history: Published 31 March 2017. In: Acta Horticulturae (ISHS) 1155: VI International Symposium on Production and Establishment of Micropropagated Plants.
Editors: M. Beruto, E.A. Ozudogru.| Tipo: Artículos en Revistas Indexadas Internacionales | Circulación / Nivel : Internacional - -- |
| Biblioteca(s): INIA Las Brujas. |
| |
| 16. | | VIGNALE, B.; PECHI, E.; SCALTRITTI, J.P.; RODRÍGUEZ, S.; SPERONI, G.; SPERANZA, P.; ROSS, S.; CABRERA, D.; CASTILLO, A. "Estudios sobre rizogénesis en ?Guayabo del país". [Presentación oral] In: UNIVERSIDAD DE LA REPÚBLICA (UDELAR)/ FACULTAD DE AGRONOMÍA; MGAP/ DGF (DIRECCIÓN GENERAL FORESTAL); INIA, PROGRAMA NACIONAL PRODUCCIÓN FRUTÍCOLA. 7° Encuentro Nacional sobre Frutos Nativos. Colonia: Estación Experimental "Alberto Boerger", INIA La Estanzuela, 9 y 10 de abril de 2015.| Tipo: Presentaciones Orales |
| Biblioteca(s): INIA Las Brujas. |
| |
| 17. | | ROSS, S.; PECHI, E.; SCALTRITTI, J.; RODRÍGUEZ, S.; CASTILLO, A.; SPERONI, G.; VIGNALE, B.; CABRERA, D.; SPERANZA, P. Estudios sobre rizogénesis en Guayabo del País. In: INIA (Instituto Nacional de Investigación Agropecuaria), Programa Nacional Producción Frutícola. 7° Encuentro Nacional sobre Frutos Nativos. Colonia (UY): INIA, 2015. p. 15 (INIA Serie Actividades de Difusión; 745)| Biblioteca(s): INIA Las Brujas. |
| |
| 18. | | ROSS, S.; PECHI, E.; SCALTRITTI, J.P.; RODRÍGUEZ, S.; SPERONI, G.; VIGNALE, B.; CABRERA, D.; SPERANZA, P. Formación de raíces adventicias en "Guayabo del país". In: INIA (INSTITUTO NACIONAL DE INVESTIGACIÓN AGROPECUARIA); PROGRAMA NACIONAL PRODUCCIÓN FRUTÍCOLA. 8° Encuentro Nacional sobre Frutos Nativos. Las Brujas, Canelones (Uruguay): INIA, 2017. p. 14 (Actividades de Difusión; 772)| Biblioteca(s): INIA Las Brujas. |
|  |
| 19. | | Galván, G.Colnago, P.Noguez, M.Peluffo, S.González Idiarte, H.Cortizas, J.M.Malutín, L.Musso, D.González Ravelino, P.Monteverde, E.Speranza, P. Mejoramiento por resistencia a enfermedades en cebolla (Proyecto INIA-FPTA) Las Brujas, Canelones (Uruguay): INIA, 2009. p. 1 (INIA Serie Actividades de Difusión ; 564) INIA Las Brujas| Biblioteca(s): INIA Las Brujas; INIA Tacuarembó. |
| |
| 20. | | REYNO, R.; NARANCIO, R.; SPERANZA, P.; DO CANTO, J.; LOPEZ-CARRO, B.; HERNANDEZ, P.; BURGUEÑO, J.; REAL, D.; DALLA RIZZA, M. Molecular and cytogenetic characterization of a collection of bahiagrass (Paspalum notatum Flügge) native to Uruguay. Genetic Resources and Crop Evolution, 2012, v. 59, no.8, p. 1823-1832. Article history: Received: 9 August 2011 / Accepted: 30 January 2012 / Published online: 22 February 2012.| Tipo: Artículos en Revistas Indexadas Internacionales | Circulación / Nivel : A - 2 |
| Biblioteca(s): INIA Las Brujas; INIA Tacuarembó. |
| |
| Registros recuperados : 23 | |
|
| Expresión de búsqueda válido. Check! |
|
|
