De novo Genome Sequencing and Gene Prediction in Lolium perenne, Perennial Ryegrass

E. M. B. Mollison; S. Barth; D. Milbourne; L. Milne; C. Halpin; M. McCabe; C. Creevey; D. F. Marshall

doi:10.1007/978-3-319-28932-8_19

De novo Genome Sequencing and Gene Prediction in Lolium perenne, Perennial Ryegrass

E. M. B. Mollison, S. Barth, D. Milbourne, L. Milne, C. Halpin, M. McCabe, C. Creevey, D. F. Marshall

Gwyddorau Bywyd

Allbwn ymchwil: Pennod mewn Llyfr/Adroddiad/Trafodion Cynhadledd › Pennod

Crynodeb

Abstract
A 1.11Gbp de novo assembly of the Lolium perenne genome was generated, containing 424,745 scaffolds and with N50 of 25,193. Gene prediction on genomic, mitochondrial and chloroplast scaffolds was carried out using both ab initio and RNA-Seq based methods. Ab initio gene prediction, carried out using wheat-based gene models, identified a total of 188,822 potential gene models from genomic scaffolds and 109 from mitochondrial. Mapping of reads from a broad-based RNA-Seq study identified 67,706 potential genes from genomic scaffolds, 90 from mitochondrial and 18 from chloroplast. Comparison of ab initio predicted genes with RNA-Seq genes identified 44,252 predicted gene models from genomic scaffolds and three from mitochondrial that overlapped with RNA-Seq derived transcripts by more than 20 % of their length.

Iaith wreiddiol	Saesneg
Teitl	Breeding in a World of Scarcity
Is-deitl	Proceedings of the 2015 Meeting of the Section “Forage Crops and Amenity Grasses” of Eucarpia
Golygyddion	Isabel Roldán-Ruiz , Joost Baert, Dirk Reheul
Cyhoeddwr	Springer Nature
Tudalennau	127-131
ISBN (Electronig)	978-3-319-28932-8
ISBN (Argraffiad)	978-3-319-28930-4, 3319289306
Dynodwyr Gwrthrych Digidol (DOIs)	https://doi.org/10.1007/978-3-319-28932-8_19
Statws	Cyhoeddwyd - 14 Meh 2016

Mynediad at Ddogfen

10.1007/978-3-319-28932-8_19

Cysylltiad parhaol

Dolen barhaus

Ffeiliau eraill a chysylltiadau

http://hdl.handle.net/2160/43674

Dyfynnu hyn

Mollison, E. M. B., Barth, S., Milbourne, D., Milne, L., Halpin, C., McCabe, M., Creevey, C., & Marshall, D. F. (2016). De novo Genome Sequencing and Gene Prediction in Lolium perenne, Perennial Ryegrass. Yn I. Roldán-Ruiz , J. Baert, & D. Reheul (Gol.), Breeding in a World of Scarcity: Proceedings of the 2015 Meeting of the Section “Forage Crops and Amenity Grasses” of Eucarpia (tt. 127-131). Springer Nature. https://doi.org/10.1007/978-3-319-28932-8_19

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title = "De novo Genome Sequencing and Gene Prediction in Lolium perenne, Perennial Ryegrass",

abstract = "AbstractA 1.11Gbp de novo assembly of the Lolium perenne genome was generated, containing 424,745 scaffolds and with N50 of 25,193. Gene prediction on genomic, mitochondrial and chloroplast scaffolds was carried out using both ab initio and RNA-Seq based methods. Ab initio gene prediction, carried out using wheat-based gene models, identified a total of 188,822 potential gene models from genomic scaffolds and 109 from mitochondrial. Mapping of reads from a broad-based RNA-Seq study identified 67,706 potential genes from genomic scaffolds, 90 from mitochondrial and 18 from chloroplast. Comparison of ab initio predicted genes with RNA-Seq genes identified 44,252 predicted gene models from genomic scaffolds and three from mitochondrial that overlapped with RNA-Seq derived transcripts by more than 20 % of their length.",

keywords = "perennial ryegrass, genome sequencing, RNA-Seq, transcriptome, gene predicition",

author = "Mollison, {E. M. B.} and S. Barth and D. Milbourne and L. Milne and C. Halpin and M. McCabe and C. Creevey and Marshall, {D. F.}",

year = "2016",

month = jun,

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doi = "10.1007/978-3-319-28932-8_19",

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Mollison, EMB, Barth, S, Milbourne, D, Milne, L, Halpin, C, McCabe, M, Creevey, C & Marshall, DF 2016, De novo Genome Sequencing and Gene Prediction in Lolium perenne, Perennial Ryegrass. yn I Roldán-Ruiz , J Baert & D Reheul (gol.), Breeding in a World of Scarcity: Proceedings of the 2015 Meeting of the Section “Forage Crops and Amenity Grasses” of Eucarpia. Springer Nature, tt. 127-131. https://doi.org/10.1007/978-3-319-28932-8_19

De novo Genome Sequencing and Gene Prediction in Lolium perenne, Perennial Ryegrass. / Mollison, E. M. B.; Barth, S.; Milbourne, D. et al.
Breeding in a World of Scarcity: Proceedings of the 2015 Meeting of the Section “Forage Crops and Amenity Grasses” of Eucarpia. gol. / Isabel Roldán-Ruiz ; Joost Baert; Dirk Reheul . Springer Nature, 2016. t. 127-131.

Allbwn ymchwil: Pennod mewn Llyfr/Adroddiad/Trafodion Cynhadledd › Pennod

TY - CHAP

T1 - De novo Genome Sequencing and Gene Prediction in Lolium perenne, Perennial Ryegrass

AU - Mollison, E. M. B.

AU - Barth, S.

AU - Milbourne, D.

AU - Milne, L.

AU - Halpin, C.

AU - McCabe, M.

AU - Creevey, C.

AU - Marshall, D. F.

PY - 2016/6/14

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N2 - AbstractA 1.11Gbp de novo assembly of the Lolium perenne genome was generated, containing 424,745 scaffolds and with N50 of 25,193. Gene prediction on genomic, mitochondrial and chloroplast scaffolds was carried out using both ab initio and RNA-Seq based methods. Ab initio gene prediction, carried out using wheat-based gene models, identified a total of 188,822 potential gene models from genomic scaffolds and 109 from mitochondrial. Mapping of reads from a broad-based RNA-Seq study identified 67,706 potential genes from genomic scaffolds, 90 from mitochondrial and 18 from chloroplast. Comparison of ab initio predicted genes with RNA-Seq genes identified 44,252 predicted gene models from genomic scaffolds and three from mitochondrial that overlapped with RNA-Seq derived transcripts by more than 20 % of their length.

AB - AbstractA 1.11Gbp de novo assembly of the Lolium perenne genome was generated, containing 424,745 scaffolds and with N50 of 25,193. Gene prediction on genomic, mitochondrial and chloroplast scaffolds was carried out using both ab initio and RNA-Seq based methods. Ab initio gene prediction, carried out using wheat-based gene models, identified a total of 188,822 potential gene models from genomic scaffolds and 109 from mitochondrial. Mapping of reads from a broad-based RNA-Seq study identified 67,706 potential genes from genomic scaffolds, 90 from mitochondrial and 18 from chloroplast. Comparison of ab initio predicted genes with RNA-Seq genes identified 44,252 predicted gene models from genomic scaffolds and three from mitochondrial that overlapped with RNA-Seq derived transcripts by more than 20 % of their length.

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KW - RNA-Seq

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KW - gene predicition

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Mollison EMB, Barth S, Milbourne D, Milne L, Halpin C, McCabe M et al. De novo Genome Sequencing and Gene Prediction in Lolium perenne, Perennial Ryegrass. Yn Roldán-Ruiz I, Baert J, Reheul D, golygyddion, Breeding in a World of Scarcity: Proceedings of the 2015 Meeting of the Section “Forage Crops and Amenity Grasses” of Eucarpia. Springer Nature. 2016. t. 127-131 doi: 10.1007/978-3-319-28932-8_19

De novo Genome Sequencing and Gene Prediction in Lolium perenne, Perennial Ryegrass

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