Limits...
De novo assembly and transcriptome analysis of two contrary tillering mutants to learn the mechanisms of tillers outgrowth in switchgrass (Panicum virgatum L.).

Xu K, Sun F, Chai G, Wang Y, Shi L, Liu S, Xi Y - Front Plant Sci (2015)

Bottom Line: Alteration of tillering ability resulted from different tiller buds outgrowth in the two mutants.In the de novo assembly results, 133,828 unigenes were detected with an average length of 1,238 bp, and 5,290 unigenes were differentially expressed between the two mutants, including 3,225 up-regulated genes and 2,065 down-regulated genes.This is the first study to explore the tillering transcriptome in two types of tillering mutants by de novo sequencing.

View Article: PubMed Central - PubMed

Affiliation: State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University Yangling, China ; Institute of Cotton Research of CAAS Anyang, China.

ABSTRACT
Tillering is an important trait in monocotyledon plants. The switchgrass (Panicum virgatum), studied usually as a source of biomass for energy production, can produce hundreds of tillers in its lifetime. Studying the tillering of switchgrass also provides information for other monocot crops. High-tillering and low-tillering mutants were produced by ethyl methanesulfonate mutagenesis. Alteration of tillering ability resulted from different tiller buds outgrowth in the two mutants. We sequenced the tiller buds transcriptomes of high-tillering and low-tillering plants using next-generation sequencing technology, and generated 34 G data in total. In the de novo assembly results, 133,828 unigenes were detected with an average length of 1,238 bp, and 5,290 unigenes were differentially expressed between the two mutants, including 3,225 up-regulated genes and 2,065 down-regulated genes. Differentially expressed gene analysis with functional annotations was performed to identify candidate genes involved in tiller bud outgrowth processes using Gene Ontology classification, Cluster of Orthologous Groups of proteins, and Kyoto Encyclopedia of Genes and Genomes pathway analysis. This is the first study to explore the tillering transcriptome in two types of tillering mutants by de novo sequencing.

No MeSH data available.


Phenotype of switchgrass mutants ht and lt. (A) Phenotype of two mutants at the first generation after mutagenesis. (B) Young seedling of ht and lt obtained by asexual propagation. (C) Tillers of ht and lt at heading stage. Left: ht, Right: lt. Bars = 10 cm.
© Copyright Policy
Related In: Results  -  Collection

License
getmorefigures.php?uid=PMC4584987&req=5

Figure 1: Phenotype of switchgrass mutants ht and lt. (A) Phenotype of two mutants at the first generation after mutagenesis. (B) Young seedling of ht and lt obtained by asexual propagation. (C) Tillers of ht and lt at heading stage. Left: ht, Right: lt. Bars = 10 cm.

Mentions: The number of tillers in the ht (high tillering) switchgrass mutant was 36 before the first cutting and increased rapidly to 115 after the third cutting. However, in the lt (low tillering) group, the number was only two before the first cutting (Figure 1A) and seven after the third cutting. The asexually propagated ht mutant still displayed higher tillering ability than lt at the tillering stage (Figure 1B). The tiller size also differed significantly between the mutants (Figure 1C). Tiller height in ht and lt was 58.3 and 139.3 cm, respectively; tiller diameter was 2.2 and 3.8 cm, respectively. In addition, there were more roots in ht than lt, but the roots were thinner (Figure 1B). This result indicated that the root branching was different in the two mutants. In longitudinal sections of the shoot apex, there was no difference in the initiation of tiller buds in two mutants (Supplementary Figure S1). These results suggest that the change in tiller number in the two mutants was caused by alteration of tiller bud outgrowth and tiller elongation.


De novo assembly and transcriptome analysis of two contrary tillering mutants to learn the mechanisms of tillers outgrowth in switchgrass (Panicum virgatum L.).

Xu K, Sun F, Chai G, Wang Y, Shi L, Liu S, Xi Y - Front Plant Sci (2015)

Phenotype of switchgrass mutants ht and lt. (A) Phenotype of two mutants at the first generation after mutagenesis. (B) Young seedling of ht and lt obtained by asexual propagation. (C) Tillers of ht and lt at heading stage. Left: ht, Right: lt. Bars = 10 cm.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4584987&req=5

Figure 1: Phenotype of switchgrass mutants ht and lt. (A) Phenotype of two mutants at the first generation after mutagenesis. (B) Young seedling of ht and lt obtained by asexual propagation. (C) Tillers of ht and lt at heading stage. Left: ht, Right: lt. Bars = 10 cm.
Mentions: The number of tillers in the ht (high tillering) switchgrass mutant was 36 before the first cutting and increased rapidly to 115 after the third cutting. However, in the lt (low tillering) group, the number was only two before the first cutting (Figure 1A) and seven after the third cutting. The asexually propagated ht mutant still displayed higher tillering ability than lt at the tillering stage (Figure 1B). The tiller size also differed significantly between the mutants (Figure 1C). Tiller height in ht and lt was 58.3 and 139.3 cm, respectively; tiller diameter was 2.2 and 3.8 cm, respectively. In addition, there were more roots in ht than lt, but the roots were thinner (Figure 1B). This result indicated that the root branching was different in the two mutants. In longitudinal sections of the shoot apex, there was no difference in the initiation of tiller buds in two mutants (Supplementary Figure S1). These results suggest that the change in tiller number in the two mutants was caused by alteration of tiller bud outgrowth and tiller elongation.

Bottom Line: Alteration of tillering ability resulted from different tiller buds outgrowth in the two mutants.In the de novo assembly results, 133,828 unigenes were detected with an average length of 1,238 bp, and 5,290 unigenes were differentially expressed between the two mutants, including 3,225 up-regulated genes and 2,065 down-regulated genes.This is the first study to explore the tillering transcriptome in two types of tillering mutants by de novo sequencing.

View Article: PubMed Central - PubMed

Affiliation: State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University Yangling, China ; Institute of Cotton Research of CAAS Anyang, China.

ABSTRACT
Tillering is an important trait in monocotyledon plants. The switchgrass (Panicum virgatum), studied usually as a source of biomass for energy production, can produce hundreds of tillers in its lifetime. Studying the tillering of switchgrass also provides information for other monocot crops. High-tillering and low-tillering mutants were produced by ethyl methanesulfonate mutagenesis. Alteration of tillering ability resulted from different tiller buds outgrowth in the two mutants. We sequenced the tiller buds transcriptomes of high-tillering and low-tillering plants using next-generation sequencing technology, and generated 34 G data in total. In the de novo assembly results, 133,828 unigenes were detected with an average length of 1,238 bp, and 5,290 unigenes were differentially expressed between the two mutants, including 3,225 up-regulated genes and 2,065 down-regulated genes. Differentially expressed gene analysis with functional annotations was performed to identify candidate genes involved in tiller bud outgrowth processes using Gene Ontology classification, Cluster of Orthologous Groups of proteins, and Kyoto Encyclopedia of Genes and Genomes pathway analysis. This is the first study to explore the tillering transcriptome in two types of tillering mutants by de novo sequencing.

No MeSH data available.