Sequencing the potato genome: outline and first results to come from the elucidation of the sequence of the world's third most important food crop
Potato is a member of the Solanaceae, a plant family that includes several other economically important species, such as tomato, eggplant, petunia, tobacco and pepper. The Potato Genome Sequencing Consortium (PGSC) aims to elucidate the complete genome sequence of potato, the third most important food crop in the world. The PGSC is a collaboration between 13 research groups from China, India, Poland, Russia, the Netherlands, Ireland, Argentina, Brazil, Chile, Peru, USA, New Zealand and the UK. The potato genome consists of 12 chromosomes and has a (haploid) length of approximately 840 million base pairs, making it a medium-sized plant genome. The sequencing project builds on a diploid potato genomic bacterial artificial chromosome (BAC) clone library of 78000 clones, which has been fingerprinted and aligned into ~7000 physical map contigs. In addition, the BAC-ends have been sequenced and are publicly available. Approximately 30000 BACs are anchored to the Ultra High Density genetic map of potato, composed of 10000 unique AFLPTM markers. From this integrated genetic-physical map, between 50 to 150 seed BACs have currently been identified for every chromosome. Fluorescent in situ hybridization experiments on selected BAC clones confirm these anchor points. The seed clones provide the starting point for a BAC-by-BAC sequencing strategy. This strategy is being complemented by whole genome shotgun sequencing approaches using both 454 GS FLX and Illumina GA2 instruments. Assembly and annotation of the sequence data will be performed using publicly available and tailor-made tools. The availability of the annotated data will help to characterize germplasm collections based on allelic variance and to assist potato breeders to more fully exploit the genetic potential of potato
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Format: | Article/Letter to editor biblioteca |
Language: | English |
Subjects: | bacterial wilt, broad-spectrum resistance, disease resistance, gene-cluster, late blight resistance, phytophthora-infestans, quantitative trait loci, solanum-bulbocastanum, system, tomato, |
Online Access: | https://research.wur.nl/en/publications/sequencing-the-potato-genome-outline-and-first-results-to-come-fr |
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dig-wur-nl-wurpubs-3852862024-09-23 Visser, R.G.F. Bachem, C.W.B. de Boer, J.M. Bryan, G.J. Chakrabati, S.K. Feingold, S. Gromadka, R. van Ham, R.C.H.J. Huang, S. Jacobs, J.M.E. Kuznetsov, Boris de Melo, P. Milbourne, D. Orjeda, G. Sagredo, Boris Tang, X. Article/Letter to editor American Journal of Potato Research 86 (2009) 6 ISSN: 1099-209X Sequencing the potato genome: outline and first results to come from the elucidation of the sequence of the world's third most important food crop 2009 Potato is a member of the Solanaceae, a plant family that includes several other economically important species, such as tomato, eggplant, petunia, tobacco and pepper. The Potato Genome Sequencing Consortium (PGSC) aims to elucidate the complete genome sequence of potato, the third most important food crop in the world. The PGSC is a collaboration between 13 research groups from China, India, Poland, Russia, the Netherlands, Ireland, Argentina, Brazil, Chile, Peru, USA, New Zealand and the UK. The potato genome consists of 12 chromosomes and has a (haploid) length of approximately 840 million base pairs, making it a medium-sized plant genome. The sequencing project builds on a diploid potato genomic bacterial artificial chromosome (BAC) clone library of 78000 clones, which has been fingerprinted and aligned into ~7000 physical map contigs. In addition, the BAC-ends have been sequenced and are publicly available. Approximately 30000 BACs are anchored to the Ultra High Density genetic map of potato, composed of 10000 unique AFLPTM markers. From this integrated genetic-physical map, between 50 to 150 seed BACs have currently been identified for every chromosome. Fluorescent in situ hybridization experiments on selected BAC clones confirm these anchor points. The seed clones provide the starting point for a BAC-by-BAC sequencing strategy. This strategy is being complemented by whole genome shotgun sequencing approaches using both 454 GS FLX and Illumina GA2 instruments. Assembly and annotation of the sequence data will be performed using publicly available and tailor-made tools. The availability of the annotated data will help to characterize germplasm collections based on allelic variance and to assist potato breeders to more fully exploit the genetic potential of potato en application/pdf https://research.wur.nl/en/publications/sequencing-the-potato-genome-outline-and-first-results-to-come-fr 10.1007/s12230-009-9097-8 https://edepot.wur.nl/15557 bacterial wilt broad-spectrum resistance disease resistance gene-cluster late blight resistance phytophthora-infestans quantitative trait loci solanum-bulbocastanum system tomato Wageningen University & Research |
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bacterial wilt broad-spectrum resistance disease resistance gene-cluster late blight resistance phytophthora-infestans quantitative trait loci solanum-bulbocastanum system tomato bacterial wilt broad-spectrum resistance disease resistance gene-cluster late blight resistance phytophthora-infestans quantitative trait loci solanum-bulbocastanum system tomato |
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bacterial wilt broad-spectrum resistance disease resistance gene-cluster late blight resistance phytophthora-infestans quantitative trait loci solanum-bulbocastanum system tomato bacterial wilt broad-spectrum resistance disease resistance gene-cluster late blight resistance phytophthora-infestans quantitative trait loci solanum-bulbocastanum system tomato Visser, R.G.F. Bachem, C.W.B. de Boer, J.M. Bryan, G.J. Chakrabati, S.K. Feingold, S. Gromadka, R. van Ham, R.C.H.J. Huang, S. Jacobs, J.M.E. Kuznetsov, Boris de Melo, P. Milbourne, D. Orjeda, G. Sagredo, Boris Tang, X. Sequencing the potato genome: outline and first results to come from the elucidation of the sequence of the world's third most important food crop |
description |
Potato is a member of the Solanaceae, a plant family that includes several other economically important species, such as tomato, eggplant, petunia, tobacco and pepper. The Potato Genome Sequencing Consortium (PGSC) aims to elucidate the complete genome sequence of potato, the third most important food crop in the world. The PGSC is a collaboration between 13 research groups from China, India, Poland, Russia, the Netherlands, Ireland, Argentina, Brazil, Chile, Peru, USA, New Zealand and the UK. The potato genome consists of 12 chromosomes and has a (haploid) length of approximately 840 million base pairs, making it a medium-sized plant genome. The sequencing project builds on a diploid potato genomic bacterial artificial chromosome (BAC) clone library of 78000 clones, which has been fingerprinted and aligned into ~7000 physical map contigs. In addition, the BAC-ends have been sequenced and are publicly available. Approximately 30000 BACs are anchored to the Ultra High Density genetic map of potato, composed of 10000 unique AFLPTM markers. From this integrated genetic-physical map, between 50 to 150 seed BACs have currently been identified for every chromosome. Fluorescent in situ hybridization experiments on selected BAC clones confirm these anchor points. The seed clones provide the starting point for a BAC-by-BAC sequencing strategy. This strategy is being complemented by whole genome shotgun sequencing approaches using both 454 GS FLX and Illumina GA2 instruments. Assembly and annotation of the sequence data will be performed using publicly available and tailor-made tools. The availability of the annotated data will help to characterize germplasm collections based on allelic variance and to assist potato breeders to more fully exploit the genetic potential of potato |
format |
Article/Letter to editor |
topic_facet |
bacterial wilt broad-spectrum resistance disease resistance gene-cluster late blight resistance phytophthora-infestans quantitative trait loci solanum-bulbocastanum system tomato |
author |
Visser, R.G.F. Bachem, C.W.B. de Boer, J.M. Bryan, G.J. Chakrabati, S.K. Feingold, S. Gromadka, R. van Ham, R.C.H.J. Huang, S. Jacobs, J.M.E. Kuznetsov, Boris de Melo, P. Milbourne, D. Orjeda, G. Sagredo, Boris Tang, X. |
author_facet |
Visser, R.G.F. Bachem, C.W.B. de Boer, J.M. Bryan, G.J. Chakrabati, S.K. Feingold, S. Gromadka, R. van Ham, R.C.H.J. Huang, S. Jacobs, J.M.E. Kuznetsov, Boris de Melo, P. Milbourne, D. Orjeda, G. Sagredo, Boris Tang, X. |
author_sort |
Visser, R.G.F. |
title |
Sequencing the potato genome: outline and first results to come from the elucidation of the sequence of the world's third most important food crop |
title_short |
Sequencing the potato genome: outline and first results to come from the elucidation of the sequence of the world's third most important food crop |
title_full |
Sequencing the potato genome: outline and first results to come from the elucidation of the sequence of the world's third most important food crop |
title_fullStr |
Sequencing the potato genome: outline and first results to come from the elucidation of the sequence of the world's third most important food crop |
title_full_unstemmed |
Sequencing the potato genome: outline and first results to come from the elucidation of the sequence of the world's third most important food crop |
title_sort |
sequencing the potato genome: outline and first results to come from the elucidation of the sequence of the world's third most important food crop |
url |
https://research.wur.nl/en/publications/sequencing-the-potato-genome-outline-and-first-results-to-come-fr |
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