Genome-wide analysis and expression characteristics of small auxin-up RNA (<i>SAUR</i>) genes in moso bamboo (<i>Phyllostachys edulis</i>)

Bai, Qingsong; Hou, Dan; Li, Long; Cheng, Zhanchao; Ge, Wei; Liu, Jun; Li, Xueping; Mu, Shaohua; Gao, Jian

doi:10.1139/gen-2016-0097

Cited by 24 publications

(12 citation statements)

References 53 publications

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“…Among the early auxin response genes, the SAUR gene family has the largest number of member; it is estimated that around half of the Arabidopsis SAUR gene transcripts are rapidly upregulated by auxin, while a small number of this family members appear to be repressed by auxin [ 60 , 61 ]. Recently, a genome-wide analysis of SAUR genes was performed in moso bamboo [ 62 ]. Of the 38 SAUR genes identified, 10 SAUR genes changed their expressions under our auxin treatment conditions, the expression levels of 7 of those genes increased, whereas 3 genes decreased (Additional file 12 : Table S17).…”

Section: Resultsmentioning

confidence: 99%

Genome-wide analysis and transcriptomic profiling of the auxin biosynthesis, transport and signaling family genes in moso bamboo (Phyllostachys heterocycla)

Wang

et al. 2017

BMC Genomics

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BackgroundAuxin is essential for plant growth and development. Although substantial progress has been made in understanding auxin pathways in model plants such as Arabidopsis and rice, little is known in moso bamboo which is famous for its fast growth resulting from the rapid cell elongation and division.ResultsHere we showed that exogenous auxin has strong effects on crown and primary roots. Genes involved in auxin action, including 13 YUCCA (YUC) genes involved in auxin synthesis, 14 PIN-FORMED/PIN-like (PIN/PILS) and 7 AUXIN1/LIKE-AUX1 (AUX1/LAX) members involved in auxin transport, 10 auxin receptors (AFB) involved in auxin perception, 43 auxin/indole-3-aceticacid (AUX/IAA) genes, and 41 auxin response factors (ARF) involved in auxin signaling were identified through genome-wide analysis. Phylogenetic analysis of these genes from Arabidopsis, Oryza sativa and bamboo revealed that auxin biosynthesis, transport, and signaling pathways are conserved in these species. A comprehensive study of auxin-responsive genes using RNA sequencing technology was performed, and the results also supported that moso bamboo shared a conserved regulatory mechanism for the expression of auxin pathway genes; meanwhile it harbors its own specific properties.ConclusionsIn summary, we generated an overview of the auxin pathway in bamboo, which provides information for uncovering the precise roles of auxin pathway in this important species in the future.Electronic supplementary materialThe online version of this article (10.1186/s12864-017-4250-0) contains supplementary material, which is available to authorized users.

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Section: Resultsmentioning

confidence: 99%

Genome-wide analysis and transcriptomic profiling of the auxin biosynthesis, transport and signaling family genes in moso bamboo (Phyllostachys heterocycla)

Wang

et al. 2017

BMC Genomics

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“…Their high abundance may be essential for auxin polar transport and cell division during bamboo shoot growth. Many studies have demonstrated that SAUR proteins can promote cell elongation (Bai et al ., ; Li et al ., ). In the early growth period, SAUR gene families were lowly expressed, but as cell elongation replaced cell division in shoot growth, SAUR family expression increased.…”

Section: Discussionmentioning

confidence: 99%

The association of hormone signalling genes, transcription and changes in shoot anatomy during moso bamboo growth

Li¹,

Cheng²,

Ma³

et al. 2017

Plant Biotechnology Journal

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105

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SummaryMoso bamboo is a large, woody bamboo with the highest ecological, economic and cultural value of all the bamboo types and accounts for up to 70% of the total area of bamboo grown. However, the spatiotemporal variation role of moso bamboo shoot during growth period is still unclear. We found that the bamboo shoot growth can be divided into three distinct periods, including winter growth, early growth and late growth based on gene expression and anatomy. In the early growth period, lateral buds germinated from the top of the bamboo joint in the shoot tip. Intercalary meristems grew vigorously during the winter growth period and early growth period, but in the late growth period, mitosis in the intercalary meristems decreased. The expression of cell cycle‐associated genes and the quantity of differentially expressed genes were higher in early growth than those in late growth, appearing to be influenced by hormonal concentrations. Gene expression analysis indicates that hormone signalling genes play key roles in shoot growth, while auxin signalling genes play a central role. In situ hybridization analyses illustrate how auxin signalling genes regulate apical dominance, meristem maintenance and lateral bud development. Our study provides a vivid picture of the dynamic changes in anatomy and gene expression during shoot growth in moso bamboo, and how hormone signalling‐associated genes participate in moso bamboo shoot growth.

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“…An auxin early response gene, SAUR , can be transcriptionally induced by auxin within minutes without the need for de novo synthesis of the protein. The research on the biological functions of SAUR mainly focuses on hypocotyl growth, stem elongation, and auxin transport [ 42 ]. Spartz et al found that SAUR019 activates plasma membrane H + -ATPases by inhibiting PP2C-D phosphatases to promote cell expansion, which provides evidence for the acid growth theory.…”

Section: Discussionmentioning

confidence: 99%

Grape Small Auxin Upregulated RNA (SAUR) 041 Is a Candidate Regulator of Berry Size in Grape

Chen

et al. 2021

IJMS

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Grape (Vitis vinifera) is an important horticultural crop that can be used to make juice and wine. However, the small size of the berry limits its yield. Cultivating larger berry varieties can be an effective way to solve this problem. As the largest family of auxin early response genes, SAUR (small auxin upregulated RNA) plays an important role in the growth and development of plants. Berry size is one of the important factors that determine grape quality. However, the SAUR gene family’s function in berry size of grape has not been studied systematically. We identified 60 SAUR members in the grape genome and divided them into 12 subfamilies based on phylogenetic analysis. Subsequently, we conducted a comprehensive and systematic analysis on the SAUR gene family by analyzing distribution of key amino acid residues in the domain, structural features, conserved motifs, and protein interaction network, and combined with the heterologous expression in Arabidopsis and tomato. Finally, the member related to grape berry size in SAUR gene family were screened. This genome-wide study provides a systematic analysis of grape SAUR gene family, further understanding the potential functions of candidate genes, and provides a new idea for grape breeding.

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Genome-wide analysis and expression characteristics of small auxin-up RNA (SAUR) genes in moso bamboo (Phyllostachys edulis)

Cited by 24 publications

References 53 publications

Genome-wide analysis and transcriptomic profiling of the auxin biosynthesis, transport and signaling family genes in moso bamboo (Phyllostachys heterocycla)

Genome-wide analysis and transcriptomic profiling of the auxin biosynthesis, transport and signaling family genes in moso bamboo (Phyllostachys heterocycla)

The association of hormone signalling genes, transcription and changes in shoot anatomy during moso bamboo growth

Grape Small Auxin Upregulated RNA (SAUR) 041 Is a Candidate Regulator of Berry Size in Grape

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