Practical aliquoting of flowering plant genomes

Abstract We pose the problem of dissecting an ancient polyploid genome into its constituent subgenomes despite fragmentation and noise caused by genome rearrangements and fractionation of multi-copy genes. We formulate this in terms of decomposition into "defective" k-partite graphs, disti...
Ausführliche Beschreibung

Gespeichert in:

Autor*in:	Zheng, Chunfang [verfasserIn] Sankoff, David

Format:	E-Artikel
Sprache:	Englisch

Erschienen:	2013

Schlagwörter:	Whole Genome Duplication Tomato Genome Whole Genome Duplication Event Grape Genome Tomato Chromosome

Anmerkung:	© Zheng and Sankoff; licensee BioMed Central Ltd. 2013

Übergeordnetes Werk:	Enthalten in: BMC bioinformatics - London : BioMed Central, 2000, 14(2013), Suppl 15 vom: 15. Okt.
Übergeordnetes Werk:	volume:14 ; year:2013 ; number:Suppl 15 ; day:15 ; month:10

Links:	Volltext

DOI / URN:	10.1186/1471-2105-14-S15-S8

Katalog-ID:	SPR026887223

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allfields	10.1186/1471-2105-14-S15-S8 doi (DE-627)SPR026887223 (SPR)1471-2105-14-S15-S8-e DE-627 ger DE-627 rakwb eng Zheng, Chunfang verfasserin aut Practical aliquoting of flowering plant genomes 2013 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Zheng and Sankoff; licensee BioMed Central Ltd. 2013 Abstract We pose the problem of dissecting an ancient polyploid genome into its constituent subgenomes despite fragmentation and noise caused by genome rearrangements and fractionation of multi-copy genes. We formulate this in terms of decomposition into "defective" k-partite graphs, distinguished by location within the genome. We devise and implement a clustering heuristic for solving realistic instances of the problem. An unusual focus of our method is the focus on prioritizing gene density or lack of gaps in the assembly of fragments into larger regions, rather than maximizing the number of genes. We validate the method against the grape genome in which the ancient core eudicot triplication is readily detectible and is already well known. We then analyze the tomato genome, whose proposed status as a descendant of a more recent Solanum hexaploid is controversial, and confirm this proposal. The solution reveals unexpected information about the evolution of the tomato. Whole Genome Duplication (dpeaa)DE-He213 Tomato Genome (dpeaa)DE-He213 Whole Genome Duplication Event (dpeaa)DE-He213 Grape Genome (dpeaa)DE-He213 Tomato Chromosome (dpeaa)DE-He213 Sankoff, David aut Enthalten in BMC bioinformatics London : BioMed Central, 2000 14(2013), Suppl 15 vom: 15. Okt. (DE-627)326644814 (DE-600)2041484-5 1471-2105 nnns volume:14 year:2013 number:Suppl 15 day:15 month:10 https://dx.doi.org/10.1186/1471-2105-14-S15-S8 kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 14 2013 Suppl 15 15 10
spelling	10.1186/1471-2105-14-S15-S8 doi (DE-627)SPR026887223 (SPR)1471-2105-14-S15-S8-e DE-627 ger DE-627 rakwb eng Zheng, Chunfang verfasserin aut Practical aliquoting of flowering plant genomes 2013 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Zheng and Sankoff; licensee BioMed Central Ltd. 2013 Abstract We pose the problem of dissecting an ancient polyploid genome into its constituent subgenomes despite fragmentation and noise caused by genome rearrangements and fractionation of multi-copy genes. We formulate this in terms of decomposition into "defective" k-partite graphs, distinguished by location within the genome. We devise and implement a clustering heuristic for solving realistic instances of the problem. An unusual focus of our method is the focus on prioritizing gene density or lack of gaps in the assembly of fragments into larger regions, rather than maximizing the number of genes. We validate the method against the grape genome in which the ancient core eudicot triplication is readily detectible and is already well known. We then analyze the tomato genome, whose proposed status as a descendant of a more recent Solanum hexaploid is controversial, and confirm this proposal. The solution reveals unexpected information about the evolution of the tomato. Whole Genome Duplication (dpeaa)DE-He213 Tomato Genome (dpeaa)DE-He213 Whole Genome Duplication Event (dpeaa)DE-He213 Grape Genome (dpeaa)DE-He213 Tomato Chromosome (dpeaa)DE-He213 Sankoff, David aut Enthalten in BMC bioinformatics London : BioMed Central, 2000 14(2013), Suppl 15 vom: 15. Okt. (DE-627)326644814 (DE-600)2041484-5 1471-2105 nnns volume:14 year:2013 number:Suppl 15 day:15 month:10 https://dx.doi.org/10.1186/1471-2105-14-S15-S8 kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 14 2013 Suppl 15 15 10
allfields_unstemmed	10.1186/1471-2105-14-S15-S8 doi (DE-627)SPR026887223 (SPR)1471-2105-14-S15-S8-e DE-627 ger DE-627 rakwb eng Zheng, Chunfang verfasserin aut Practical aliquoting of flowering plant genomes 2013 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Zheng and Sankoff; licensee BioMed Central Ltd. 2013 Abstract We pose the problem of dissecting an ancient polyploid genome into its constituent subgenomes despite fragmentation and noise caused by genome rearrangements and fractionation of multi-copy genes. We formulate this in terms of decomposition into "defective" k-partite graphs, distinguished by location within the genome. We devise and implement a clustering heuristic for solving realistic instances of the problem. An unusual focus of our method is the focus on prioritizing gene density or lack of gaps in the assembly of fragments into larger regions, rather than maximizing the number of genes. We validate the method against the grape genome in which the ancient core eudicot triplication is readily detectible and is already well known. We then analyze the tomato genome, whose proposed status as a descendant of a more recent Solanum hexaploid is controversial, and confirm this proposal. The solution reveals unexpected information about the evolution of the tomato. Whole Genome Duplication (dpeaa)DE-He213 Tomato Genome (dpeaa)DE-He213 Whole Genome Duplication Event (dpeaa)DE-He213 Grape Genome (dpeaa)DE-He213 Tomato Chromosome (dpeaa)DE-He213 Sankoff, David aut Enthalten in BMC bioinformatics London : BioMed Central, 2000 14(2013), Suppl 15 vom: 15. Okt. (DE-627)326644814 (DE-600)2041484-5 1471-2105 nnns volume:14 year:2013 number:Suppl 15 day:15 month:10 https://dx.doi.org/10.1186/1471-2105-14-S15-S8 kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 14 2013 Suppl 15 15 10
allfieldsGer	10.1186/1471-2105-14-S15-S8 doi (DE-627)SPR026887223 (SPR)1471-2105-14-S15-S8-e DE-627 ger DE-627 rakwb eng Zheng, Chunfang verfasserin aut Practical aliquoting of flowering plant genomes 2013 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Zheng and Sankoff; licensee BioMed Central Ltd. 2013 Abstract We pose the problem of dissecting an ancient polyploid genome into its constituent subgenomes despite fragmentation and noise caused by genome rearrangements and fractionation of multi-copy genes. We formulate this in terms of decomposition into "defective" k-partite graphs, distinguished by location within the genome. We devise and implement a clustering heuristic for solving realistic instances of the problem. An unusual focus of our method is the focus on prioritizing gene density or lack of gaps in the assembly of fragments into larger regions, rather than maximizing the number of genes. We validate the method against the grape genome in which the ancient core eudicot triplication is readily detectible and is already well known. We then analyze the tomato genome, whose proposed status as a descendant of a more recent Solanum hexaploid is controversial, and confirm this proposal. The solution reveals unexpected information about the evolution of the tomato. Whole Genome Duplication (dpeaa)DE-He213 Tomato Genome (dpeaa)DE-He213 Whole Genome Duplication Event (dpeaa)DE-He213 Grape Genome (dpeaa)DE-He213 Tomato Chromosome (dpeaa)DE-He213 Sankoff, David aut Enthalten in BMC bioinformatics London : BioMed Central, 2000 14(2013), Suppl 15 vom: 15. Okt. (DE-627)326644814 (DE-600)2041484-5 1471-2105 nnns volume:14 year:2013 number:Suppl 15 day:15 month:10 https://dx.doi.org/10.1186/1471-2105-14-S15-S8 kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 14 2013 Suppl 15 15 10
allfieldsSound	10.1186/1471-2105-14-S15-S8 doi (DE-627)SPR026887223 (SPR)1471-2105-14-S15-S8-e DE-627 ger DE-627 rakwb eng Zheng, Chunfang verfasserin aut Practical aliquoting of flowering plant genomes 2013 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Zheng and Sankoff; licensee BioMed Central Ltd. 2013 Abstract We pose the problem of dissecting an ancient polyploid genome into its constituent subgenomes despite fragmentation and noise caused by genome rearrangements and fractionation of multi-copy genes. We formulate this in terms of decomposition into "defective" k-partite graphs, distinguished by location within the genome. We devise and implement a clustering heuristic for solving realistic instances of the problem. An unusual focus of our method is the focus on prioritizing gene density or lack of gaps in the assembly of fragments into larger regions, rather than maximizing the number of genes. We validate the method against the grape genome in which the ancient core eudicot triplication is readily detectible and is already well known. We then analyze the tomato genome, whose proposed status as a descendant of a more recent Solanum hexaploid is controversial, and confirm this proposal. The solution reveals unexpected information about the evolution of the tomato. Whole Genome Duplication (dpeaa)DE-He213 Tomato Genome (dpeaa)DE-He213 Whole Genome Duplication Event (dpeaa)DE-He213 Grape Genome (dpeaa)DE-He213 Tomato Chromosome (dpeaa)DE-He213 Sankoff, David aut Enthalten in BMC bioinformatics London : BioMed Central, 2000 14(2013), Suppl 15 vom: 15. Okt. (DE-627)326644814 (DE-600)2041484-5 1471-2105 nnns volume:14 year:2013 number:Suppl 15 day:15 month:10 https://dx.doi.org/10.1186/1471-2105-14-S15-S8 kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 14 2013 Suppl 15 15 10
language	English
source	Enthalten in BMC bioinformatics 14(2013), Suppl 15 vom: 15. Okt. volume:14 year:2013 number:Suppl 15 day:15 month:10
sourceStr	Enthalten in BMC bioinformatics 14(2013), Suppl 15 vom: 15. Okt. volume:14 year:2013 number:Suppl 15 day:15 month:10
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author	Zheng, Chunfang
spellingShingle	Zheng, Chunfang misc Whole Genome Duplication misc Tomato Genome misc Whole Genome Duplication Event misc Grape Genome misc Tomato Chromosome Practical aliquoting of flowering plant genomes
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topic_title	Practical aliquoting of flowering plant genomes Whole Genome Duplication (dpeaa)DE-He213 Tomato Genome (dpeaa)DE-He213 Whole Genome Duplication Event (dpeaa)DE-He213 Grape Genome (dpeaa)DE-He213 Tomato Chromosome (dpeaa)DE-He213
topic	misc Whole Genome Duplication misc Tomato Genome misc Whole Genome Duplication Event misc Grape Genome misc Tomato Chromosome
topic_unstemmed	misc Whole Genome Duplication misc Tomato Genome misc Whole Genome Duplication Event misc Grape Genome misc Tomato Chromosome
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title	Practical aliquoting of flowering plant genomes
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title_full	Practical aliquoting of flowering plant genomes
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title_sort	practical aliquoting of flowering plant genomes
title_auth	Practical aliquoting of flowering plant genomes
abstract	Abstract We pose the problem of dissecting an ancient polyploid genome into its constituent subgenomes despite fragmentation and noise caused by genome rearrangements and fractionation of multi-copy genes. We formulate this in terms of decomposition into "defective" k-partite graphs, distinguished by location within the genome. We devise and implement a clustering heuristic for solving realistic instances of the problem. An unusual focus of our method is the focus on prioritizing gene density or lack of gaps in the assembly of fragments into larger regions, rather than maximizing the number of genes. We validate the method against the grape genome in which the ancient core eudicot triplication is readily detectible and is already well known. We then analyze the tomato genome, whose proposed status as a descendant of a more recent Solanum hexaploid is controversial, and confirm this proposal. The solution reveals unexpected information about the evolution of the tomato. © Zheng and Sankoff; licensee BioMed Central Ltd. 2013
abstractGer	Abstract We pose the problem of dissecting an ancient polyploid genome into its constituent subgenomes despite fragmentation and noise caused by genome rearrangements and fractionation of multi-copy genes. We formulate this in terms of decomposition into "defective" k-partite graphs, distinguished by location within the genome. We devise and implement a clustering heuristic for solving realistic instances of the problem. An unusual focus of our method is the focus on prioritizing gene density or lack of gaps in the assembly of fragments into larger regions, rather than maximizing the number of genes. We validate the method against the grape genome in which the ancient core eudicot triplication is readily detectible and is already well known. We then analyze the tomato genome, whose proposed status as a descendant of a more recent Solanum hexaploid is controversial, and confirm this proposal. The solution reveals unexpected information about the evolution of the tomato. © Zheng and Sankoff; licensee BioMed Central Ltd. 2013
abstract_unstemmed	Abstract We pose the problem of dissecting an ancient polyploid genome into its constituent subgenomes despite fragmentation and noise caused by genome rearrangements and fractionation of multi-copy genes. We formulate this in terms of decomposition into "defective" k-partite graphs, distinguished by location within the genome. We devise and implement a clustering heuristic for solving realistic instances of the problem. An unusual focus of our method is the focus on prioritizing gene density or lack of gaps in the assembly of fragments into larger regions, rather than maximizing the number of genes. We validate the method against the grape genome in which the ancient core eudicot triplication is readily detectible and is already well known. We then analyze the tomato genome, whose proposed status as a descendant of a more recent Solanum hexaploid is controversial, and confirm this proposal. The solution reveals unexpected information about the evolution of the tomato. © Zheng and Sankoff; licensee BioMed Central Ltd. 2013
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title_short	Practical aliquoting of flowering plant genomes
url	https://dx.doi.org/10.1186/1471-2105-14-S15-S8
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We formulate this in terms of decomposition into "defective" k-partite graphs, distinguished by location within the genome. We devise and implement a clustering heuristic for solving realistic instances of the problem. An unusual focus of our method is the focus on prioritizing gene density or lack of gaps in the assembly of fragments into larger regions, rather than maximizing the number of genes. We validate the method against the grape genome in which the ancient core eudicot triplication is readily detectible and is already well known. We then analyze the tomato genome, whose proposed status as a descendant of a more recent Solanum hexaploid is controversial, and confirm this proposal. 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