Transcriptome profiling of Elymus sibiricus, an important forage grass in Qinghai-Tibet plateau, reveals novel insights into candidate genes that potentially connected to seed shattering

Xie, Wengang; Zhang, Junchao; Zhao, Xuhong; Zhang, Zongyu; Wang, Yanrong

doi:10.1186/s12870-017-1026-2

Cited by 17 publications

(33 citation statements)

References 67 publications

(89 reference statements)

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“…Histological analysis in the present study revealed that the location and timing of formation of the abscission layer in perennial ryegrass is the same as that in rice and wild rye (Xie et al 2017; Yoon et al 2017), suggesting that the lignification of the abscission layer in perennial ryegrass plays an important role in the seed shattering trait.…”

Section: Discussionsupporting

confidence: 56%

Identification and expression of genes associated with the abscission layer controlling seed shattering inLolium perenne

Song

Zhao

et al. 2018

AoB PLANTS

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Perennial ryegrass (Lolium perenne) is one of the most important pasture grasses in the world. However, seed production is negatively impacted by the seed shattering (shedding) nature of this species. Recently, genes involved in the seed shattering process have been isolated and functionally characterized in several crop species. The aim of this study was to identify the genes playing critical roles in the seed shattering process in perennial ryegrass. DNA sequences of genes involved in seed shattering in the Poaceae were used to identify and isolate target genes in perennial ryegrass using a comparative genomics strategy. The candidate seed shattering genes were identified using an ‘in-house’ perennial ryegrass transcriptome database. The relative expression levels of the candidate ryegrass shattering genes were determined using RT–qPCR during different floret and seed developmental stages. Histological analysis of the abscission layer was also conducted. Homologues of seed shattering genes were identified and isolated from perennial ryegrass, and the relative gene expression results suggested that several genes, including LpqSH1 and LpSH1, might have a role in abscission layer formation during seed development. In addition, lignification of the abscission layer may play an important role in the abscission process. A genetic model for seed shattering in perennial ryegrass is suggested and may be useful for directing gene editing towards the production of a reduced-shattering ryegrass.

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Section: Discussionsupporting

confidence: 56%

Identification and expression of genes associated with the abscission layer controlling seed shattering inLolium perenne

Song

Zhao

et al. 2018

AoB PLANTS

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“…Unlike domesticated cereal crops, such as rice and wheat, that have awnless species, which facilitate harvesting and processing activities [4], no awnless Siberian wildrye genotype has been reported so far. Siberian wildrye has been widely used in cultivated pastures and natural grasslands because of its high quality and palatable forage with high protein content, as well as excellent stress tolerance [5]. However, the grass is biologically ineffective at producing seeds and there are considerable seed losses even in suitable growing conditions [2].…”

Section: Introductionmentioning

confidence: 99%

Potential Effects of Awn Length Variation on Seed Yield and Components, Seed Dispersal and Germination Performance in Siberian Wildrye (Elymus sibiricus L.)

Ntakirutimana

Xiao

Xie

et al. 2019

Plants

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Awns, needle-like structures formed on the distal of the lemmas in the florets, are of interest because of their essential roles in seed dispersal, germination and photosynthesis. Previous research has reported the potential benefits of awns in major cereal grasses, yet reports on the agronomic and economic implications of awn length variation in forage grasses remain scarce. This study investigated the variation of awn length among 20 Siberian wildrye populations and the effect of awn length on seed yield and yield components. This work then studied the impact of awn length on seed dispersal and germination. The analyses indicated a high level of awn length variation among populations. Awn length showed a significant influence on harvested seed yield per plant (p < 0.05) mostly driven by interactions between awn length and the majority of seed yield components. Principal component analysis clearly revealed that the final impact of awn length on seed yield depends on the balance of its positive and negative effects on traits determining seed yield. Furthermore, awn length tended to increase seed dispersal distance, although little diversity in the nature of this progression was observed in some populations. Awn length exhibited a significant relationship (p < 0.05) with germination percentage. It also tended to shorten germination duration, although this interaction was not statistically significant. Collectively, these results provide vital information for breeding and agronomic programs aiming to maintain yield in grasses. This is the first report to demonstrate in Siberian wildrye the agronomic impacts of awn length variation.

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“…Seed shattering variation among wild plants and cultivars results from different degradation degree of abscission layers. A previous study in E. sibiricus showed a higher degradation degree of abscission layers in high seed shattering genotype [10]. Meanwhile, seed shattering habit is a complex trait which is controlled and regulated by many genes [12].…”

Section: Introductionmentioning

confidence: 99%

Elymus nutans genes for seed shattering and candidate gene-derived EST-SSR markers for germplasm evaluation

Zhao

Zhang

et al. 2019

BMC Plant Biol

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BackgroundElymus nutans and E. sibiricus are two important forage grasses of the genus Elymus. But they are difficult to grow for commercial seed production due to serious seed shattering. We conducted a comparative transcriptome analysis of abscission zone to find possible transcription changes associated with seed shattering, explore candidate genes involved in seed shattering and identify candidate gene-based EST-SSR markers for germplasm evaluation.ResultscDNA libraries from abscission zone (AZ) and non-abscission zone (NAZ) tissues of E. nutans were constructed and sequenced. A total of 111,667 unigenes were annotated and 7644 differentially expressed transcripts (DETs) were predicted, corresponding to 6936 up-regulated in AZ and 708 down-regulated in NAZ. We identified 489 candidate genes related to transcription factor, cell wall hydrolysis or modification, hydrolase activity, phytohormone signaling and response, lignin biosynthesis, and signal transduction or protein turnover. Eleven similar candidate genes involved in polygalacturonase activity, hydrolase activity, and mitogen-activated protein kinase were up-regulated in the abscission zone of the two Elymus species, suggesting these genes may have specific function for abscission zone development and seed shattering. A total of 67 polymorphic EST-SSR markers were developed and characterized based on the sequences of these candidate genes. Fourteen polymorphic EST-SSR primers were finally used to study genetic diversity in 48 E. nutans genotypes with contrasting seed shattering habit. The dendrogram based on molecular data showed that most accessions with similar seed shattering degree tended to group together.ConclusionsThe expression data generated from this study provides an important resource for future molecular biological research. Many DETs were associated with abscission zone development, and EST-SSR loci related to candidate genes may have potential application in identifying trait-associated markers in E. nutans in the future.Electronic supplementary materialThe online version of this article (10.1186/s12870-019-1691-4) contains supplementary material, which is available to authorized users.

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Transcriptome profiling of Elymus sibiricus, an important forage grass in Qinghai-Tibet plateau, reveals novel insights into candidate genes that potentially connected to seed shattering

Cited by 17 publications

References 67 publications

Identification and expression of genes associated with the abscission layer controlling seed shattering inLolium perenne

Identification and expression of genes associated with the abscission layer controlling seed shattering inLolium perenne

Potential Effects of Awn Length Variation on Seed Yield and Components, Seed Dispersal and Germination Performance in Siberian Wildrye (Elymus sibiricus L.)

Elymus nutans genes for seed shattering and candidate gene-derived EST-SSR markers for germplasm evaluation

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