De novo next generation sequencing of plant genomes

Steve Rounsley; Pradeep Reddy Marri; Yeisoo Yu; Ruifeng He; Nick Sisneros; Jose Luis Goicoechea; So Jeong Lee; Angelina Angelova; Dave Kudrna; Meizhong Luo; Jason Affourtit; Brian Desany; James Knight; Faheem Niazi; Michael Egholm; Rod A. Wing

doi:10.1007/s12284-009-9025-z

De novo next generation sequencing of plant genomes

Steve Rounsley, Pradeep Reddy Marri, Yeisoo Yu, Ruifeng He, Nick Sisneros, Jose Luis Goicoechea, So Jeong Lee, Angelina Angelova, Dave Kudrna, Meizhong Luo, Jason Affourtit, Brian Desany, James Knight, Faheem Niazi, Michael Egholm, Rod A. Wing

Research output: Contribution to journal › Article › peer-review

54 Scopus citations

Abstract

The genome sequencing of all major food and bioenergy crops is of critical importance in the race to improve crop production to meet the future food and energy security needs of the world. Next generation sequencing technologies have brought about great improvements in sequencing throughput and cost, but do not yet allow for de novo sequencing of large repetitive genomes as found in most crop plants.We present a strategy that combines cutting edge next generation sequencing with "old school" genomics resources and allows rapid cost-effective sequencing of plant genomes.

Original language	English (US)
Pages (from-to)	35-43
Number of pages	9
Journal	Rice
Volume	2
Issue number	1
DOIs	https://doi.org/10.1007/s12284-009-9025-z
State	Published - Mar 2009

Keywords

Genome assembly
Genome sequencing
Next generation sequencing
Oryza

ASJC Scopus subject areas

Agronomy and Crop Science
Soil Science
Plant Science

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10.1007/s12284-009-9025-z

Cite this

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title = "De novo next generation sequencing of plant genomes",

abstract = "The genome sequencing of all major food and bioenergy crops is of critical importance in the race to improve crop production to meet the future food and energy security needs of the world. Next generation sequencing technologies have brought about great improvements in sequencing throughput and cost, but do not yet allow for de novo sequencing of large repetitive genomes as found in most crop plants.We present a strategy that combines cutting edge next generation sequencing with {"}old school{"} genomics resources and allows rapid cost-effective sequencing of plant genomes.",

keywords = "Genome assembly, Genome sequencing, Next generation sequencing, Oryza",

author = "Steve Rounsley and Marri, {Pradeep Reddy} and Yeisoo Yu and Ruifeng He and Nick Sisneros and Goicoechea, {Jose Luis} and Lee, {So Jeong} and Angelina Angelova and Dave Kudrna and Meizhong Luo and Jason Affourtit and Brian Desany and James Knight and Faheem Niazi and Michael Egholm and Wing, {Rod A.}",

note = "Funding Information: Acknowledgements This work was supported by National Science Foundation grants DBI-0638541 (to RAW and SR), DBI-0321678 (to RAW), and the Bud Antle Endowed Chair (to RAW)",

year = "2009",

month = mar,

doi = "10.1007/s12284-009-9025-z",

language = "English (US)",

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journal = "Rice",

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T1 - De novo next generation sequencing of plant genomes

AU - Rounsley, Steve

AU - Marri, Pradeep Reddy

AU - Yu, Yeisoo

AU - He, Ruifeng

AU - Sisneros, Nick

AU - Goicoechea, Jose Luis

AU - Lee, So Jeong

AU - Angelova, Angelina

AU - Kudrna, Dave

AU - Luo, Meizhong

AU - Affourtit, Jason

AU - Desany, Brian

AU - Knight, James

AU - Niazi, Faheem

AU - Egholm, Michael

AU - Wing, Rod A.

N1 - Funding Information: Acknowledgements This work was supported by National Science Foundation grants DBI-0638541 (to RAW and SR), DBI-0321678 (to RAW), and the Bud Antle Endowed Chair (to RAW)

PY - 2009/3

Y1 - 2009/3

N2 - The genome sequencing of all major food and bioenergy crops is of critical importance in the race to improve crop production to meet the future food and energy security needs of the world. Next generation sequencing technologies have brought about great improvements in sequencing throughput and cost, but do not yet allow for de novo sequencing of large repetitive genomes as found in most crop plants.We present a strategy that combines cutting edge next generation sequencing with "old school" genomics resources and allows rapid cost-effective sequencing of plant genomes.

AB - The genome sequencing of all major food and bioenergy crops is of critical importance in the race to improve crop production to meet the future food and energy security needs of the world. Next generation sequencing technologies have brought about great improvements in sequencing throughput and cost, but do not yet allow for de novo sequencing of large repetitive genomes as found in most crop plants.We present a strategy that combines cutting edge next generation sequencing with "old school" genomics resources and allows rapid cost-effective sequencing of plant genomes.

KW - Genome assembly

KW - Genome sequencing

KW - Next generation sequencing

KW - Oryza

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De novo next generation sequencing of plant genomes

Abstract

Keywords

ASJC Scopus subject areas

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