Comparative transcriptome analyses reveal different mechanism of high- and low-tillering genotypes controlling tiller growth in orchardgrass (Dactylis glomerata L.)

Xu, Xiaofei; Feng, Guangyan; Liang, Yueyang; Yang, Shuai; Liu, Qiuxu; Nie, Gang; Yang, Zhongfu; Hang, Linkai; Zhang, Xinquan

doi:10.1186/s12870-020-02582-2

Cited by 7 publications

(11 citation statements)

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“…The regulation mechanism of plant tillering has been revealed from analysis of hormones, genes and transcription, which has provided a basis for the study of forage yield formation, environmental adaptation and the survival competitiveness of gramineous plants. Xu et al (2020) reported that approximately 13,609 DEGs were identified from a high-tillering genotype and a low-tillering genotype of Orchard grass. In this research, P. juncea with dense tillers and sparse tillers were selected for transcriptome analysis.…”

Section: Discussionmentioning

confidence: 99%

EST-SSR Primer Development and Genetic Structure Analysis of Psathyrostachys juncea Nevski

Lan

Gao

et al. 2022

Front. Plant Sci.

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Psathyrostachys juncea is a perennial forage grass which plays an important role in soil and water conservation and ecological maintenance in cold and dry areas of temperate regions. In P. juncea, a variety of biotic and abiotic stress related genes have been used in crop improvement, indicating its agronomic, economic, forage, and breeding value. To date, there have been few studies on the genetic structure of P. juncea. Here, the genetic diversity and population structure of P. juncea were analyzed by EST-SSR molecular markers to evaluate the genetic differentiation related to tillering traits in P. juncea germplasm resources. The results showed that 400 simple sequence repeat (SSR) loci were detected in 2,020 differentially expressed tillering related genes. A total of 344 scored bands were amplified using 103 primer pairs, out of which 308 (89.53%) were polymorphic. The Nei’s gene diversity of 480 individuals was between 0.092 and 0.449, and the genetic similarity coefficient was between 0.5008 and 0.9111, with an average of 0.6618. Analysis of molecular variance analysis showed that 93% of the variance was due to differences within the population, and the remaining 7% was due to differences among populations. Psathyrostachys juncea materials were clustered into five groups based on population genetic structure, principal coordinate analysis and unweighted pair-group method with arithmetic means (UPGMA) analysis. The results were similar between clustering methods, but a few individual plants were distributed differently by the three models. The clustering results, gene diversity and genetic similarity coefficients showed that the overall genetic relationship of P. juncea individuals was relatively close. A Mantel test, UPGMA and structural analysis also showed a significant correlation between genetic relationship and geographical distribution. These results provide references for future breeding programs, genetic improvement and core germplasm collection of P. juncea.

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Section: Discussionmentioning

confidence: 99%

EST-SSR Primer Development and Genetic Structure Analysis of Psathyrostachys juncea Nevski

Lan

Gao

et al. 2022

Front. Plant Sci.

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“…2). Xu et al [44] reported that ploidy was not associated with a hightillering and a low-tillering phenotype of Orchardgrass. Abundant researches have shown that the tiller number is related to the tiller angle [50,51].…”

Section: Phenotypic Differences Between Dense and Sparse Tillering P ...mentioning

confidence: 99%

“…In addition, many of these DEGs were highly expressed in the tiller node tissues of DT compared with ST, which might be responsible for the difference in tiller phenotypes. Xu et al [44] analyzed transcriptome of different organs of orchardgrass, including tiller buds, shoot base, root and leaf tissues, and found that tiller buds had the most DEGs compared with other organs. Moreover, tiller buds had more tiller regulation pathways (such as hormone regulation and biosynthesis of lignin) than other organs.…”

Section: Candidate Genes and Regulatory Processes Involved In Tiller ...mentioning

confidence: 99%

“…However, screening and using stable reference genes was helpful to eliminate the variability caused by different development stages, different tissue samples and various stress conditions, so as to ensure the accuracy and reliability of qRT-PCR results. Stable reference genes have been found in many plants, for example orchardgrass (Dactylis glomerata L.), rice (Oryza sativa L.) and wheat (Triticum aestivum L.) [44][45][46]. There are no reports on the tillering regulation related genes，and any stable reference genes in the qRT-PCR process for P. juncea.…”

Section: Introductionmentioning

confidence: 99%

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Analysis of controlling genes for tiller growth of Psathyrostachys juncea based on transcriptome sequencing technology

Lan

Ren

et al. 2022

BMC Plant Biol

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Background Tillering is a complicated process in plant and is a significant trait that affects biomass and seed yield of bunch grass Psathyrostachys juncea, a typical perennial forage species. To clarify the regulatory mechanisms of tillering in P. juncea and to explore related candidate genes could be helpful to improve the seed and forage yield of perennial gramineous forages. We selected the tiller node tissues of P. juncea for transcriptome sequencing to determine the differentially expressed genes (DEG) between dense and sparse tillering genotypes. The metabolic pathway was studied, candidate genes were screened, and reference genes stability were evaluated. Results The results showed that approximately 5466 DEGs were identified between the two genotypes with dense and sparse tillers of P. juncea, which significantly differed in tiller number. Tillering regulation pathways analysis suggested that DEGs closely related to the biosynthesis of three plant hormones, namely auxin (IAA), cytokinin (CTK), and strigolactones (SLs), while “biosynthesis of lignin” and “nitrogen metabolism” have remarkable differences between the dense and sparse tillering genotypes. Meanwhile, the reference gene Actin1, having the best stability, was screened from twelve genes with highest expression level and was used in verification of ten tillering related candidate genes. Conclusions The tillering mechanism of perennial grass P. juncea was expounded by transcriptome analysis of tiller node tissues. We demonstrated that dense-tillering genotypes may be distinguished by their low expression patterns of genes involved in SL, IAA, and high expression patterns of genes involved in CTK biosynthesis at the tillering stage, and nitrogen metabolism and lignin biosynthesis can also affect the number of tillers. Furthermore, the expression level of ten tillering related candidate genes were verified using Actin1 as reference gene. These candidate genes provide valuable breeding resources for marker assisted selection and yield traits improvement of P. juncea.

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“…GA is involved in the regulation of tillering, but its effect on tillering (branch) is different in different species. Previous studies found that GA might promote tillering/branch in perennial woody plants, such as sweet cherry [ 13 ] and Jatropha curcas [ 14 ], but inhibit tillering/branch in annual herbaceous plants, such as tall fescue [ 15 ], orchardgrass [ 16 ] and tomato [ 17 ]. Previous studies confirmed that CTK improves tillering development [ 15 , 18 ].…”

Section: Introductionmentioning

confidence: 99%

Physiological and Comparative Transcriptome Analyses of the High-Tillering Mutant mtn1 Reveal Regulatory Mechanisms in the Tillering of Centipedegrass (Eremochloa ophiuroides (Munro) Hack.)

Xie

Zong

et al. 2022

IJMS

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Tillering is a key factor that determines the reproductive yields of centipedegrass, which is an important perennial warm-season turfgrass. However, the regulatory mechanism of tillering in perennial plants is poorly understood, especially in perennial turfgrasses. In this study, we created and characterised a cold plasma-mutagenised centipedegrass mutant, mtn1 (more tillering number 1). Phenotypic analysis showed that the mtn1 mutant exhibited high tillering, short internodes, long seeds and a heavy 1000-seed weight. Then, a comparative transcriptomic analysis of the mtn1 mutant and wild-type was performed to explore the molecular mechanisms of centipedegrass tillering. The results revealed that plant hormone signalling pathways, as well as starch and sucrose metabolism, might play important roles in centipedegrass tillering. Hormone and soluble sugar content measurements and exogenous treatment results validated that plant hormones and sugars play important roles in centipedegrass tiller development. In particular, the overexpression of the auxin transporter ATP-binding cassette B 11 (EoABCB11) in Arabidopsis resulted in more branches. Single nucleotide polymorphisms (SNPs) were also identified, which will provide a useful resource for molecular marker-assisted breeding in centipedegrass. According to the physiological characteristics and transcriptional expression levels of the related genes, the regulatory mechanism of centipedegrass tillering was systematically revealed. This research provides a new breeding resource for further studies into the molecular mechanism that regulates tillering in perennial plants and for breeding high-tillering centipedegrass varieties.

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Comparative transcriptome analyses reveal different mechanism of high- and low-tillering genotypes controlling tiller growth in orchardgrass (Dactylis glomerata L.)

Cited by 7 publications

References 58 publications

EST-SSR Primer Development and Genetic Structure Analysis of Psathyrostachys juncea Nevski

EST-SSR Primer Development and Genetic Structure Analysis of Psathyrostachys juncea Nevski

Analysis of controlling genes for tiller growth of Psathyrostachys juncea based on transcriptome sequencing technology

Physiological and Comparative Transcriptome Analyses of the High-Tillering Mutant mtn1 Reveal Regulatory Mechanisms in the Tillering of Centipedegrass (Eremochloa ophiuroides (Munro) Hack.)

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