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1.
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From pathogen genomes to host plant processes: the power of plant parasitic oomycetes
Marina
Pais,
Joe
Win,
Kentaro
Yoshida,
Graham
J
Etherington,
Liliana
M
Cano,
Sylvain
Raffaele,
Mark
J
Banfield,
Alex
Jones,
Sophien
Kamoun,
Diane
GO Saunders
Genome Biology 2013, 14:211 (28 June 2013)
Abstract | Full text | PDF | PubMed
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Editor’s summary
Saunders, Kamoun & co review recent genomics insights into plant parasitic oomycete effector function and plant host responses
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2.
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Biofuel and energy crops: high-yield Saccharinae take center stage in the post-genomics era
Savio
de Siqueira Ferreira,
Milton
Nishiyama,
Andrew
H
Paterson,
Glaucia
Souza
Genome Biology 2013, 14:210 (27 June 2013)
Abstract | Full text | PDF | PubMed
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Editor’s summary
A Review of developments in our ability to improve desirable traits in biofuel and energy crops
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3.
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Gene regulatory networks in plants: learning causality from time and perturbation
Gabriel
Krouk,
Jesse
Lingeman,
Amy
Colon,
Gloria
Coruzzi,
Dennis
Shasha
Genome Biology 2013, 14:123 (27 June 2013)
Abstract | Full text | PDF | PubMed
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Editor’s summary
Opinion: how are systems biology approaches being utilized to model causality in gene regulatory networks?
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4.
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Turning over a new leaf in plant genomics
Mario
Caccamo,
Erich
Grotewold
Genome Biology 2013, 14:403 (27 June 2013)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
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Editor’s summary
Mario Caccamo and Erich Grotewold, Guest Editors of Genome Biology's special issue, discuss why plant genomics is such a hot topic
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5.
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Plant genomics: from weed to wheat
Kerstin
Kaufmann,
Wolfgang
Busch
Genome Biology 2013, 14:308 (27 June 2013)
Abstract | Full text | PDF | PubMed
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Editor’s summary
A report on the first 'Plant Genomics Congress' meeting, held in London, UK, 12-13 May 2013.
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6.
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A conifer genome spruces up plant phylogenomics
Pamela
S
Soltis,
Douglas
E
Soltis
Genome Biology 2013, 14:122 (27 June 2013)
Abstract | Full text | PDF | PubMed
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Editor’s summary
Pam and Doug Soltis highlight the sequencing of the Norway Spruce genome, and how this has shed light on gymnosperm evolution
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7.
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The plant microbiome
Thomas
R
Turner,
Euan
K
James,
Philip
S
Poole
Genome Biology 2013, 14:209 (25 June 2013)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
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Editor’s summary
Philip Poole and colleagues discuss how genomics approaches are unraveling the complex interactions between plant hosts and microbiome communities
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8.
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Interactions of beneficial and detrimental root-colonizing filamentous microbes with plant hosts
Thomas
Rey,
Sebastian
Schornack
Genome Biology 2013, 14:121 (25 June 2013)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
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Editor’s summary
An Opinion describing the similarities and differences in how plants respond to symbiotic and parasitic microbes
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9.
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Separating homeologs by phasing in the tetraploid wheat transcriptome
Ksenia
V
Krasileva,
Vince
Buffalo,
Paul
Bailey,
Stephen
Pearce,
Sarah
Ayling,
Facundo
Tabbita,
Marcelo
Soria,
Shichen
Wang,
Iwgs
Consortium,
Eduard
Akhunov,
Cristobal
Uauy,
Jorge
Dubcovsky
Genome Biology 2013, 14:R66 (25 June 2013)
Abstract | Provisional PDF
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Editor’s summary
A novel transcriptome assembly pipeline that separates merged homeologs allows assembly of the tetraploid wheat transcriptome
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10.
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The circadian clock goes genomic
Dorothee
Staiger,
Jieun
Shin,
Mikael
Johansson,
Seth
J
Davis
Genome Biology 2013, 14:208 (24 June 2013)
Abstract | Full text | PDF | PubMed
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Editor’s summary
Seth Davis and colleagues review how comparative genomics approaches have advanced our understanding of regulation of the circadian clock in plants
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11.
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The promise of genomics in the study of plant-pollinator interactions
Elizabeth
L
Clare,
Florian
P
Schiestl,
Andrew
R
Leitch,
Lars
Chittka
Genome Biology 2013, 14:207 (24 June 2013)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
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Editor’s summary
Lars Chittka and colleagues review current advances in understanding the genetic basis of plant-pollinator interactions
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12.
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Open access to tree genomes: the path to a better forest
David
B
Neale,
Charles
H
Langley,
Steven
L
Salzberg,
Jill
L
Wegrzyn
Genome Biology 2013, 14:120 (24 June 2013)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central |
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Editor’s summary
David Neale, Steven Salzberg and colleagues share their view on the need for a better open access infrastructure in tree genomics
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13.
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Genomics reveals new landscapes for crop improvement
Michael
W
Bevan,
Cristobal
Uauy
Genome Biology 2013, 14:206 (24 June 2013)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
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Editor’s summary
Mike Bevan reviews how genomic approaches are being used to accelerate and improve crop breeding
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14.
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Hyperosmotic priming of Arabidopsis seedlings establishes a long-term somatic memory accompanied by specific changes of the epigenome
Emanuela
Sani,
Pawel
Herzyk,
Giorgio
Perrella,
Vincent
Colot,
Anna
Amtmann
Genome Biology 2013, 14:R59 (14 June 2013)
Abstract | Full text | PDF | PubMed | F1000 Biology
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Editor’s summary
Exposure of young seedlings to salt stress causes histone modifications and transcriptional changes, enhancing stress tolerance in mature plants
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15.
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Conservation and divergence of transcriptomic and epigenomic variation in maize hybrids
Guangming
He,
Beibei
Chen,
Xuncheng
Wang,
Xueyong
Li,
Jigang
Li,
Hang
He,
Mei
Yang,
Lu
Lu,
Yijun
Qi,
Xiping
Wang,
Xing
Wang Deng
Genome Biology 2013, 14:R57 (12 June 2013)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
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Editor’s summary
An analysis of the effect of genotype and tissue type on transcriptional and epigenetic changes in maize inbred lines and hybrids
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16.
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Plastic, fantastic! Phenotypic variance in the transcriptional landscape of the grape berry
Alisdair
R
Fernie,
Takayuki
Tohge
Genome Biology 2013, 14:119 (7 June 2013)
Abstract | Full text | PDF | PubMed
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Editor’s summary
A Research Highlight covering Mario Pezzotti's research article analyzing the plasticity of grape berrys in response to environmental changes
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17.
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The plasticity of the grapevine berry transcriptome
Silvia
Dal Santo,
Giovanni
Tornielli,
Sara
Zenoni,
Marianna
Fasoli,
Lorenzo
Farina,
Andrea
Anesi,
Flavia
Guzzo,
Massimo
Delledonne,
Mario
Pezzotti
Genome Biology 2013, 14:r54 (7 June 2013)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
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Editor’s summary
A transcriptomic and metabolomic analysis of the plasticity of grapevine berry gene expression in response to development and the environment
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18.
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The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color
Juan
C
Motamayor,
Keithanne
Mockaitis,
Jeremy
Schmutz,
Niina
Haiminen,
Donald
Livingstone,
Omar
Cornejo,
Seth
D
Findley,
Ping
Zheng,
Filippo
Utro,
Stefan
Royaert,
Christopher
Saski,
Jerry
Jenkins,
Ram
Podicheti,
Meixia
Zhao,
Brian
E
Scheffler,
Joseph
C
Stack,
Frank
A
Feltus,
Guiliana
M
Mustiga,
Freddy
Amores,
Wilbert
Phillips,
Jean Philippe
Marelli,
Gregory
D
May,
Howard
Shapiro,
Jianxin
Ma,
Carlos
D
Bustamante,
Raymond
J
Schnell,
Dorrie
Main,
Don
Gilbert,
Laxmi
Parida,
David
N
Kuhn
Genome Biology 2013, 14:R53 (3 June 2013)
Abstract | Provisional PDF
| PubMed | Cited on BioMed Central
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Editor’s summary
The genome sequence of Theobroma cacao Matina 1-6 allows the identification of a gene associated with pod color
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19.
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Genome of the long-living sacred lotus (Nelumbo nucifera Gaertn.)
Ray
Ming,
Robert
VanBuren,
Yanling
Liu,
Mei
Yang,
Yuepeng
Han,
Lei-Ting
Li,
Qiong
Zhang,
Min-Jeong
Kim,
Michael
C
Schatz,
Michael
Campbell,
Jingping
Li,
John
E
Bowers,
Haibao
Tang,
Eric
Lyons,
Ann
A
Ferguson,
Giuseppe
Narzisi,
David
R
Nelson,
Crysten
E
Blaby-Haas,
Andrea
R
Gschwend,
Yuannian
Jiao,
Joshua
P
Der,
Fanchang
Zeng,
Jennifer
Han,
Xiang Jia
Min,
Karen
A
Hudson,
Ratnesh
Singh,
Aleel
K
Grennan,
Steven
J
Karpowicz,
Jennifer
R
Watling,
Kikukatsu
Ito
et al.
Genome Biology 2013, 14:R41 (10 May 2013)
Abstract | Provisional PDF
| PubMed | Cited on BioMed Central | F1000 Biology
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Editor’s summary
The genome of the long-living, slowly evolving sacred lotus reveals the genetic mechanisms underlying its adaptation to limited nutrient availability
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20.
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Food for thought from plant and animal genomes
Emily
Abrash
Genome Biology 2013, 14:302 (27 February 2013)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
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Editor’s summary
A report on the Plant and Animal Genome XXI meeting, held in San Diego, USA, January 12-16, 2013.
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21.
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Natural variation of H3K27me3 distribution between two Arabidopsis accessions and its association with flanking transposable elements
Xue
Dong,
Julia
Reimer,
Ulrike
Göbel,
Julia
Engelhorn,
Fei
He,
Heiko
Schoof,
Franziska
Turck
Genome Biology 2012, 13:R117 (19 December 2012)
Abstract | Full text | PDF | PubMed
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Editor’s summary
An analysis of natural variation of H3K27me3 in 2 Arabidopsis thaliana accessions and in their F1 hybrids
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22.
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International plant molecular biology: a bright future for green science
Sibum
Sung,
Enamul
Huq,
Z Jeffrey
Chen
Genome Biology 2012, 13:323 (19 November 2012)
Abstract | Full text | PDF | PubMed
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Editor’s summary
A report on the 10th International Congress of Plant Molecular Biology, Jeju, South Korea, October 21-26, 2012.
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23.
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Strategies towards sequencing complex crop genomes
James
C
Abbott,
Sarah
A
Butcher
Genome Biology 2012, 13:322 (19 November 2012)
Abstract | Full text | PDF | PubMed
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Editor’s summary
A report on the Strategies for de novo assemblies of complex crop genomes workshop held at The Genome Analysis Centre, Norwich, UK, 8-10 October 2012.
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24.
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Contribution of the epigenetic mark H3K27me3 to functional divergence after whole genome duplication in Arabidopsis
Lidija
Berke,
Gabino
F
Sanchez-Perez,
Berend
Snel
Genome Biology 2012, 13:R94 (3 October 2012)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
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Editor’s summary
H3K27me3 is linked to lower expression divergence yet higher coding sequence divergence following Arabidopsis thaliana's recent whole genome duplication
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25.
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The tomato genome: implications for plant breeding, genomics and evolution
Aashish
Ranjan,
Yasunori
Ichihashi,
Neelima
R
Sinha
Genome Biology 2012, 13:167 (30 August 2012)
Abstract | Full text | PDF | PubMed
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Editor’s summary
The importance of the tomato genome for plant breeding and the future of crop research
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