比较 RNA 分析确定了 Bambusoideae 和 Pooideae 物种中特定阶段的 phasiRNA 和共表达 Argonaute 基因。

IF 10 1区生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY

Plant Cell Pub Date : 2024-12-23 DOI:10.1093/plcell/koae308

Sébastien Bélanger, Junpeng Zhan, Yunqing Yu, Blake C Meyers

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引用次数: 0

摘要

PhasiRNA（分阶段小干扰 RNA）在支持禾本科植物雄性生殖力方面发挥着至关重要的作用。早先在玉米（Zea mays）和水稻（Oryza sativa）以及随后在许多其他植物物种中发现了减数分裂前 21-nt 和减数分裂 24-nt phasiRNAs。最近，在大麦（Hordeum vulgare）和面包小麦（Triticum aestivum）这两种普氏植物的花药中发现了一组减数分裂前 24-nt phasiRNAs。至于减数分裂前 24-nt phasiRNAs 和其他生殖类 phasiRNAs 是否在不同的普氏拟南芥物种中保持一致，目前仍不清楚。我们对 6 个 Pooideae 物种和 1 个 Bambusoideae 物种的 3 个花药阶段进行了比较 RNA 分析。我们观察到 21-nt 和 24-nt phasiRNAs 在禾本科和禾本科禾本科植物中复杂的时间积累模式。在 Bambusoideae 中，21-nt phasiRNAs 在减数分裂过程中积累，而 24-nt phasiRNAs 在减数分裂前期和后期都存在。我们在考察的所有七个物种中都发现了减数分裂前期的 24-nt phasiRNAs。与减数分裂期的 24-nt phasiRNA 相比，这些 phasiRNA 表现出不同的生物发生机制和潜在的 Argonaute 效应器。我们发现，与阶段特异性 phasiRNAs 共同表达的特定 Argonaute 基因在 Bambusoideae 和 Pooideae 物种中是保守的。我们的降解组分析发现了一组跨物种的保守 miRNA 靶基因，而 21-nt phasiRNA 靶基因则具有物种特异性。在 24-nt phasiRNAs 中，只观察到少数靶基因被裂解。总之，本研究表明，雌核发育前的 24-nt phasiRNA 在竹科和拟南芥科中都存在，而其他类别的 21-nt 和 24-nt phasiRNA 的时间积累在竹科和拟南芥科物种之间存在差异。此外，这三类 phasiRNAs 的靶标可能会迅速演变或无法检测。

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Comparative RNA profiling identifies stage-specific phasiRNAs and coexpressed Argonaute genes in Bambusoideae and Pooideae species.

Phased, small interfering RNAs (PhasiRNAs) play a crucial role in supporting male fertility in grasses. Earlier work in maize (Zea mays) and rice (Oryza sativa)-and subsequently many other plant species-identified premeiotic 21-nucleotide (nt) and meiotic 24-nt phasiRNAs. More recently, a group of premeiotic 24-nt phasiRNAs was discovered in the anthers of 2 Pooideae species, barley (Hordeum vulgare) and bread wheat (Triticum aestivum). Whether premeiotic 24-nt phasiRNAs and other classes of reproductive phasiRNAs are conserved across Pooideae species remains unclear. We conducted comparative RNA profiling of 3 anther stages in 6 Pooideae species and 1 Bambusoideae species. We observed complex temporal accumulation patterns of 21-nt and 24-nt phasiRNAs in Pooideae and Bambusoideae grasses. In Bambusoideae, 21-nt phasiRNAs accumulated during meiosis, whereas 24-nt phasiRNAs were present in both premeiotic and postmeiotic stages. We identified premeiotic 24-nt phasiRNAs in all 7 species examined. These phasiRNAs exhibit distinct biogenesis mechanisms and potential Argonaute effectors compared to meiotic 24-nt phasiRNAs. We show that specific Argonaute genes coexpressed with stage-specific phasiRNAs are conserved across Bambusoideae and Pooideae species. Our degradome analysis identified a set of conserved miRNA target genes across species, while 21-nt phasiRNA targets were species-specific. Cleavage of few targets was observed for 24-nt phasiRNAs. In summary, this study demonstrates that premeiotic 24-nt phasiRNAs are present across Bambusoideae and Pooideae families, and the temporal accumulation of other classes of 21-nt and 24-nt phasiRNA differs between bamboo and Pooideae species. Furthermore, targets of the 3 classes of phasiRNAs may be rapidly evolving or undetectable.

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来源期刊

Plant Cell 生物-生化与分子生物学

CiteScore

16.90

自引率

5.20%

发文量

337

审稿时长

2.4 months

期刊介绍： Title: Plant Cell Publisher: Published monthly by the American Society of Plant Biologists (ASPB) Produced by Sheridan Journal Services, Waterbury, VT History and Impact: Established in 1989 Within three years of publication, ranked first in impact among journals in plant sciences Maintains high standard of excellence Scope: Publishes novel research of special significance in plant biology Focus areas include cellular biology, molecular biology, biochemistry, genetics, development, and evolution Primary criteria: articles provide new insight of broad interest to plant biologists and are suitable for a wide audience Tenets: Publish the most exciting, cutting-edge research in plant cellular and molecular biology Provide rapid turnaround time for reviewing and publishing research papers Ensure highest quality reproduction of data Feature interactive format for commentaries, opinion pieces, and exchange of information in review articles, meeting reports, and insightful overviews.