Cellulose Synthase-Like Genes of Rice

Hazen, Samuel P.; Scott-Craig, John S.; Walton, Jonathan D.

doi:10.1104/pp.010875

Cited by 169 publications

(148 citation statements)

References 20 publications

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“…We used sequences encoded by the identified CesA or Csl genes in Arabidopsis 25 , poplar 44,45 , rice 46 , maize 26 and sorghum 24 for alignment to those encoded by the gene models of Brachypodium and bamboo by BLASTP with E values under 1 × 10 -10 . Aligned hits with at least 200 amino acids of matched length and over 50% protein sequence identity were considered to be homologs of the CesA or Csl genes.…”

Section: Competing Financial Interestsmentioning

confidence: 99%

The draft genome of the fast-growing non-timber forest species moso bamboo (Phyllostachys heterocycla)

et al. 2013

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l e t t e r sBamboo represents the only major lineage of grasses that is native to forests and is one of the most important nontimber forest products in the world. However, no species in the Bambusoideae subfamily has been sequenced. Here, we report a high-quality draft genome sequence of moso bamboo (P. heterocycla var. pubescens). The 2.05-Gb assembly covers 95% of the genomic region. Gene prediction modeling identified 31,987 genes, most of which are supported by cDNA and deep RNA sequencing data. Analyses of clustered gene families and gene collinearity show that bamboo underwent whole-genome duplication 7-12 million years ago. Identification of gene families that are key in cell wall biosynthesis suggests that the whole-genome duplication event generated more gene duplicates involved in bamboo shoot development. RNA sequencing analysis of bamboo flowering tissues suggests a potential connection between droughtresponsive and flowering genes.Bamboo is one of the most important non-timber forest products in the world. About 2.5 billion people depend economically on bamboo, and international trade in bamboo amounts to over 2.5 billion US dollars per year 1 . Bamboo has a rather striking life history, characterized by a prolonged vegetative phase lasting decades before flowering, thereby inhibiting genetic improvement. Recent genomic studies in bamboo have included genome-wide full-length cDNA sequencing 2 , chloroplast genome sequencing 3 , identification of syntenic genes between bamboo and other grasses 4 and phylogenetic analysis of Bambusoideae subspecies 5 . Fifty-nine simple sequence repeat markers from rice and sugarcane were used in the genetic diversity analyses of 23 bamboo species 6 , and 2 species-specific sequence-characterized amplified region markers were developed in the identification of different bamboo species 7 .Here, we report the draft genome of moso bamboo, a large woody bamboo that has ecological, economic and cultural value in Asia and accounts for ~70% of the total bamboo growth area. Comparative genome-wide analyses of bamboo to other grass species, including rice, maize and sorghum, yielded new genetic insights into the rapid and marked phenotypic and ecological divergence of bamboo and closely related grasses.The moso bamboo genome contains 24 pairs of chromosomes 8 (2n = 48) and is characteristic of a diploid (Supplementary Fig. 1a). We conducted a flow cytometry analysis and estimated that it had a genome size of 2.075 Gb (2C = 4.24 pg; Supplementary Fig. 1b), which was very close to that estimated in a previous report 9 .Because it is difficult to generate an inbred line of moso bamboo, owing to its infrequent sexual reproduction and the long periods of time between flowering intervals, we selected five plants from a single individual rhizome of the moso bamboo ecotype (P. heterocycla var. pubescens) and performed whole-genome shotgun sequencing. We generated 295 Gb of raw sequence data (approximately 147-fold coverage), including Illumina short reads and 10,327 pairs of BAC end ...

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Section: Competing Financial Interestsmentioning

confidence: 99%

The draft genome of the fast-growing non-timber forest species moso bamboo (Phyllostachys heterocycla)

et al. 2013

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“…These include the cellulose synthase subfamily (CesA) and Cellulose synthaselike (Csl) subfamilies A to H, each of which consists of multiple genes (Richmond and Somerville, 2000). For example, in rice (Oryza sativa) there are 37 Csl genes in total, while in Arabidopsis (Arabidopsis thaliana) there are 30 (Hazen et al, 2002;Somerville et al, 2004). Surprisingly few Csl genes have been assigned a specific function in plant cell wall biosynthesis.…”

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The Genetics and Transcriptional Profiles of the Cellulose Synthase-Like HvCslF Gene Family in Barley

Burton

Jobling²,

Harvey³

et al. 2008

Plant Physiol.

206

295

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“…Annotation of a large number of sequences in the public and private EST databases as being either CesA or CesA-like (Csl) followed once the cotton CesA sequence became available (18). Complete genome sequencing revealed the presence of 29 Csl genes in Arabidopsis and 37 in rice (18)(19)(20).…”

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Plant Golgi cell wall synthesis: From genes to enzyme activities

Dhugga

2005

Proc. Natl. Acad. Sci. U.S.A.

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Cellulose Synthase-Like Genes of Rice

Cited by 169 publications

References 20 publications

The draft genome of the fast-growing non-timber forest species moso bamboo (Phyllostachys heterocycla)

The draft genome of the fast-growing non-timber forest species moso bamboo (Phyllostachys heterocycla)

The Genetics and Transcriptional Profiles of the Cellulose Synthase-Like HvCslF Gene Family in Barley

Plant Golgi cell wall synthesis: From genes to enzyme activities

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