The genome sequence of black cottonwood (Populus trichocarpa) reveals 18 conserved cellulose synthase (CesA) genes

Djerbi, Soraya; Lindskog, Maria; Arvestad, Lars; Sterky, Fredrik; Teeri, Tuula T.

doi:10.1007/s00425-005-1498-4

Cited by 122 publications

(96 citation statements)

References 36 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…Phylogenetic analysis reveals that these unique components, in the primary and secondary cell walls, represent distinct gene families that diverged early in the evolution of land plants (Holland et al, 2000;Samuga and Joshi, 2002;Tanaka et al, 2003;Burton et al, 2004;Djerbi et al, 2005;Nairn and Haselkorn, 2005;Ranik and Myburg, 2006;Suzuki et al, 2006;Kumar et al, 2009;Carroll and Specht, 2011).…”

Section: Discussionmentioning

confidence: 99%

“…Phylogenetic analysis revealed six distinct CESA clades found in seed plants, each corresponding to one of the six required components of the primary and secondary cellulose synthase complexes in Arabidopsis (Holland et al, 2000;Samuga and Joshi, 2002;Tanaka et al, 2003;Burton et al, 2004;Djerbi et al, 2005;Nairn and Haselkorn, 2005;Ranik and Myburg, 2006;Suzuki et al, 2006;Kumar et al, 2009;Carroll and Specht, 2011). The interaction between the different CESA proteins in the primary and secondary rosettes has been characterized previously by coimmunoprecipitation and yeast two-hybrid methods, showing interaction patterns with similarities between primary and secondary CESAs (Taylor et al, 2000;Desprez et al, 2007;Wang et al, 2008;Atanassov et al, 2009;Timmers et al, 2009).…”

mentioning

confidence: 83%

See 1 more Smart Citation

Complexes with Mixed Primary and Secondary Cellulose Synthases Are Functional in Arabidopsis Plants

Carroll

Mansoori

et al. 2012

Plant Physiology

View full text Add to dashboard Cite

In higher plants, cellulose is synthesized by so-called rosette protein complexes with cellulose synthases (CESAs) as catalytic subunits of the complex. The CESAs are divided into two distinct families, three of which are thought to be specialized for the primary cell wall and three for the secondary cell wall. In this article, the potential of primary and secondary CESAs forming a functional rosette complex has been investigated. The membrane-based yeast two-hybrid and biomolecular fluorescence systems were used to assess the interactions between three primary (CESA1, CESA3, CESA6), and three secondary (CESA4, CESA7, CESA8) Arabidopsis (Arabidopsis thaliana) CESAs. The results showed that all primary CESAs can physically interact both in vitro and in planta with all secondary CESAs. Although CESAs are broadly capable of interacting in pairwise combinations, they are not all able to form functional complexes in planta. Analysis of transgenic lines showed that CESA7 can partially rescue defects in the primary cell wall biosynthesis in a weak cesa3 mutant. Green fluorescent protein-CESA protein fusions revealed that when CESA3 was replaced by CESA7 in the primary rosette, the velocity of the mixed complexes was slightly faster than the native primary complexes. CESA1 in turn can partly rescue defects in secondary cell wall biosynthesis in a cesa8ko mutant, resulting in an increase of cellulose content relative to cesa8ko. These results demonstrate that sufficient parallels exist between the primary and secondary complexes for cross-functionality and open the possibility that mixed complexes of primary and secondary CESAs may occur at particular times.

show abstract

Section: Discussionmentioning

confidence: 99%

mentioning

confidence: 83%

Complexes with Mixed Primary and Secondary Cellulose Synthases Are Functional in Arabidopsis Plants

Carroll

Mansoori

et al. 2012

Plant Physiology

View full text Add to dashboard Cite

show abstract

“…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

View full text Add to dashboard Cite

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 ...

show abstract

“…The CesA gene family has ten members in Arabidopsis (Richmond and Somerville 2000), while Populus has 18 expressed CesA genes (Djerbi et al 2005;Suzuki et al 2006;Kumar et al 2009). A phylogenetic analysis of the Populus CesA gene family revealed that the 18 CesA genes grouped with the ten Arabidopsis orthologs in all of the primary and secondary cell wall related clades and that Populus has two or more paralogs of some Arabidopsis genes (Kumar et al 2009).…”

Section: Introductionmentioning

confidence: 99%

Induced somatic sector analysis of cellulose synthase (CesA) promoter regions in woody stem tissues

Creux

Bossinger

Myburg

et al. 2012

Planta

View full text Add to dashboard Cite

The increasing focus on plantation forestry as a renewable source of cellulosic biomass has emphasized the need for tools to study the unique biology of woody genera such as Eucalyptus, Populus and Pinus. The domestication of these woody crops is hampered by long generation times, and breeders are now looking to molecular approaches such as markerassisted breeding and genetic modification to accelerate tree improvement. Much of what is known about genes involved in the growth and development of plants has come from studies of herbaceous models such as Arabidopsis and rice. However, transferring this information to woody plants often proves difficult, especially for genes expressed in woody stems. Here we report the use of Induced Somatic Sector Analysis (ISSA) for characterization of promoter expression patterns directly in the stems of Populus and Eucalyptus trees. As a case study, we used previously characterized primary and secondary cell wall related cellulose synthase (CesA) promoters cloned from Eucalyptus grandis. We show that ISSA can be used to elucidate the phloem and xylem expression patterns of the CesA genes in Eucalyptus and Populus stems, but also show that the staining patterns differ in Eucalyptus and Populus stems. These findings show that ISSA is an efficient approach to investigate promoter function in the developmental context of woody plant tissues and raise questions about the suitability of heterologous promoters for genetic manipulation in plant species.

show abstract

The genome sequence of black cottonwood (Populus trichocarpa) reveals 18 conserved cellulose synthase (CesA) genes

Cited by 122 publications

References 36 publications

Complexes with Mixed Primary and Secondary Cellulose Synthases Are Functional in Arabidopsis Plants

Complexes with Mixed Primary and Secondary Cellulose Synthases Are Functional in Arabidopsis Plants

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

Induced somatic sector analysis of cellulose synthase (CesA) promoter regions in woody stem tissues

Contact Info

Product

Resources

About