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פותח על ידי קלירמאש פתרונות בע"מ -
Anchoring the consensus ICuGI genetic map to the melon (Cucumis melo L.) genome
Year:
2015
Source of publication :
Molecular Breeding
Authors :
הראל-ביז'ה, רותם
;
.
צורי, גליל
;
.
קציר, נורית
;
.
Volume :
35
Co-Authors:
Diaz, A., Instituto de Biología Molecular y Celular de Plantas (IBMCP), Universitat Politècnica de València (UPV)-Consejo Superior de Investigaciones Científicas (CSIC), Ciudad Politécnica de la Innovación (CPI), Ed. 8E, C/Ingeniero Fausto Elio s/n, Valencia, Spain, Unidad de Hortofruticultura, Instituto Agroalimentario de Aragón (IA2) (CITA-Universidad de Zaragoza), Avenida de Montañana 930, Saragossa, Spain
Forment, J., Instituto de Biología Molecular y Celular de Plantas (IBMCP), Universitat Politècnica de València (UPV)-Consejo Superior de Investigaciones Científicas (CSIC), Ciudad Politécnica de la Innovación (CPI), Ed. 8E, C/Ingeniero Fausto Elio s/n, Valencia, Spain
Argyris, J.M., IRTA, Centre for Research in Agricultural Genomics (CRAG), CSIC-IRTA-UAB-UB, Campus UAB, Bellaterra, Barcelona, Spain
Fukino, N., NARO Institute of Vegetable and Tea Science (NIVTS), Ano, Tsu, Mie, Japan
Tzuri, G., Department of Vegetable Research, ARO, Newe Ya’ar Research Center, P.O. Box 1021, Ramat Yishay, Israel
Harel-Beja, R., Department of Vegetable Research, ARO, Newe Ya’ar Research Center, P.O. Box 1021, Ramat Yishay, Israel
Katzir, N., Department of Vegetable Research, ARO, Newe Ya’ar Research Center, P.O. Box 1021, Ramat Yishay, Israel
Garcia-Mas, J., IRTA, Centre for Research in Agricultural Genomics (CRAG), CSIC-IRTA-UAB-UB, Campus UAB, Bellaterra, Barcelona, Spain
Monforte, A.J., Instituto de Biología Molecular y Celular de Plantas (IBMCP), Universitat Politècnica de València (UPV)-Consejo Superior de Investigaciones Científicas (CSIC), Ciudad Politécnica de la Innovación (CPI), Ed. 8E, C/Ingeniero Fausto Elio s/n, Valencia, Spain
Facilitators :
From page:
To page:
(
Total pages:
1
)
Abstract:
Melon (Cucumis melo L.) genetic maps were compiled by the International Cucurbit Genomics Initiative (ICuGI) before the release of the melon genome. However, due to the use of different marker sets, the position of ICuGI markers in the genome remained unknown, complicating the integration of previous genetic mapping studies in the genome. We looked for the genome position of 870 simple sequence repeat and single nucleotide polymorphism (SNP) markers from the ICuGI map, locating 836 of them in the melon pseudochromosomes v3.5.1, and integrating them with previously available SNPs to reach a total of 1850 markers mapped in the genome sequence. The number of markers per scaffold ranged from 1 to 105, with an average of 13, thus improving on the previous studies in melon. Twenty-three of the markers mapped on virtual chromosome “0”, twelve of them being included in the ICuGI map, which could assist in the anchoring of some unanchored contigs and scaffolds. Genetic and physical distance comparison showed a good collinearity between them, confirming the quality of the ICuGI map. A higher recombination rate was also usually found at the ends of the chromosomes, whereas a drastic reduction was observed in the putative pericentromeric regions. Quantitative trait loci (QTL) previously located in the ICuGI map were also anchored in the genome. This work offers the opportunity to supplement the genetic maps available up to now with the genomic resources resulting from the melon genome sequencing to facilitate comparative mapping in melon between past and new studies, and to overcome some of the current limitations in QTL gene identification. © 2015, Springer Science+Business Media Dordrecht.
Note:
Related Files :
Cucumis melo L
Genome anchoring
Physical map
QTL
simple sequence repeat
single nucleotide polymorphism
עוד תגיות
תוכן קשור
More details
DOI :
10.1007/s11032-015-0381-7
Article number:
188
Affiliations:
Database:
סקופוס
Publication Type:
מאמר
;
.
Language:
אנגלית
Editors' remarks:
ID:
24185
Last updated date:
02/03/2022 17:27
Creation date:
17/04/2018 00:05
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Scientific Publication
Anchoring the consensus ICuGI genetic map to the melon (Cucumis melo L.) genome
35
Diaz, A., Instituto de Biología Molecular y Celular de Plantas (IBMCP), Universitat Politècnica de València (UPV)-Consejo Superior de Investigaciones Científicas (CSIC), Ciudad Politécnica de la Innovación (CPI), Ed. 8E, C/Ingeniero Fausto Elio s/n, Valencia, Spain, Unidad de Hortofruticultura, Instituto Agroalimentario de Aragón (IA2) (CITA-Universidad de Zaragoza), Avenida de Montañana 930, Saragossa, Spain
Forment, J., Instituto de Biología Molecular y Celular de Plantas (IBMCP), Universitat Politècnica de València (UPV)-Consejo Superior de Investigaciones Científicas (CSIC), Ciudad Politécnica de la Innovación (CPI), Ed. 8E, C/Ingeniero Fausto Elio s/n, Valencia, Spain
Argyris, J.M., IRTA, Centre for Research in Agricultural Genomics (CRAG), CSIC-IRTA-UAB-UB, Campus UAB, Bellaterra, Barcelona, Spain
Fukino, N., NARO Institute of Vegetable and Tea Science (NIVTS), Ano, Tsu, Mie, Japan
Tzuri, G., Department of Vegetable Research, ARO, Newe Ya’ar Research Center, P.O. Box 1021, Ramat Yishay, Israel
Harel-Beja, R., Department of Vegetable Research, ARO, Newe Ya’ar Research Center, P.O. Box 1021, Ramat Yishay, Israel
Katzir, N., Department of Vegetable Research, ARO, Newe Ya’ar Research Center, P.O. Box 1021, Ramat Yishay, Israel
Garcia-Mas, J., IRTA, Centre for Research in Agricultural Genomics (CRAG), CSIC-IRTA-UAB-UB, Campus UAB, Bellaterra, Barcelona, Spain
Monforte, A.J., Instituto de Biología Molecular y Celular de Plantas (IBMCP), Universitat Politècnica de València (UPV)-Consejo Superior de Investigaciones Científicas (CSIC), Ciudad Politécnica de la Innovación (CPI), Ed. 8E, C/Ingeniero Fausto Elio s/n, Valencia, Spain
Anchoring the consensus ICuGI genetic map to the melon (Cucumis melo L.) genome
Melon (Cucumis melo L.) genetic maps were compiled by the International Cucurbit Genomics Initiative (ICuGI) before the release of the melon genome. However, due to the use of different marker sets, the position of ICuGI markers in the genome remained unknown, complicating the integration of previous genetic mapping studies in the genome. We looked for the genome position of 870 simple sequence repeat and single nucleotide polymorphism (SNP) markers from the ICuGI map, locating 836 of them in the melon pseudochromosomes v3.5.1, and integrating them with previously available SNPs to reach a total of 1850 markers mapped in the genome sequence. The number of markers per scaffold ranged from 1 to 105, with an average of 13, thus improving on the previous studies in melon. Twenty-three of the markers mapped on virtual chromosome “0”, twelve of them being included in the ICuGI map, which could assist in the anchoring of some unanchored contigs and scaffolds. Genetic and physical distance comparison showed a good collinearity between them, confirming the quality of the ICuGI map. A higher recombination rate was also usually found at the ends of the chromosomes, whereas a drastic reduction was observed in the putative pericentromeric regions. Quantitative trait loci (QTL) previously located in the ICuGI map were also anchored in the genome. This work offers the opportunity to supplement the genetic maps available up to now with the genomic resources resulting from the melon genome sequencing to facilitate comparative mapping in melon between past and new studies, and to overcome some of the current limitations in QTL gene identification. © 2015, Springer Science+Business Media Dordrecht.
Scientific Publication
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