Global discovery and characterization of small non-coding RNAs in marine microalgae.
Global discovery and characterization of small non-coding RNAs in marine microalgae.
复制标题
海洋微藻中小非编码 RNA 的全球发现和表征。
DOI：
10.1186/1471-2164-15-697
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发表时间：
2014-08-20
期刊：
影响因子：
4.4
通讯作者：
Mock T
中科院分区：
文献类型：
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作者：
Lopez-Gomollon S;Beckers M;Rathjen T;Moxon S;Maumus F;Mohorianu I;Moulton V;Dalmay T;Mock T
海洋浮游植物占全球每年固定二氧化碳的50%，并对海洋中的其他生物地球化学循环做出了巨大贡献。硅藻和球藻作为海洋食物网的基础扮演着重要的角色，它们由于能够形成水华和生物矿化而隔离碳。为了发现这两个重要浮游植物类群中短非编码RNA(SRNAs)的存在和调控，我们对两个硅藻物种(假海藻，Fragilariopsis Cylindrus)的短RNA转录本进行了测序，并通过Northern blotts和球石虫Emily huxleyi进行了验证。尽管进行了详尽的搜索，但我们没有在硅藻中发现典型的miRNAs。硅藻中最突出的sRNA类是重复相关sRNAs和tRNA衍生sRNAs。后者也出现在E.huxleyi中。在重要的环境胁迫条件(铁和硅酸盐限制、氧化胁迫、碱性pH)下，硅藻中都能诱导出tRNA衍生的sRNAs，即使在最佳生长条件下，tRNA在极地硅藻中也非常丰富(占总sRNAs的20.7%)。这项研究首次为海洋微藻中存在短的非编码RNA提供了实验证据。我们的数据表明，硅藻中不存在规范的miRNAs。然而，tRNA衍生的sRNAs在硅藻和球藻中似乎非常突出，可能用于适应环境条件。本文的在线版本(DOI：10.1186/1471-2164-15-697)包含补充材料，授权用户可以使用。
Marine phytoplankton are responsible for 50% of the CO2 that is fixed annually worldwide and contribute massively to other biogeochemical cycles in the oceans. Diatoms and coccolithophores play a significant role as the base of the marine food web and they sequester carbon due to their ability to form blooms and to biomineralise. To discover the presence and regulation of short non-coding RNAs (sRNAs) in these two important phytoplankton groups, we sequenced short RNA transcriptomes of two diatom species (Thalassiosira pseudonana, Fragilariopsis cylindrus) and validated them by Northern blots along with the coccolithophore Emiliania huxleyi. Despite an exhaustive search, we did not find canonical miRNAs in diatoms. The most prominent classes of sRNAs in diatoms were repeat-associated sRNAs and tRNA-derived sRNAs. The latter were also present in E. huxleyi. tRNA-derived sRNAs in diatoms were induced under important environmental stress conditions (iron and silicate limitation, oxidative stress, alkaline pH), and they were very abundant especially in the polar diatom F. cylindrus (20.7% of all sRNAs) even under optimal growth conditions. This study provides first experimental evidence for the existence of short non-coding RNAs in marine microalgae. Our data suggest that canonical miRNAs are absent from diatoms. However, the group of tRNA-derived sRNAs seems to be very prominent in diatoms and coccolithophores and maybe used for acclimation to environmental conditions. The online version of this article (doi:10.1186/1471-2164-15-697) contains supplementary material, which is available to authorized users.
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影响因子：
56.9
作者：
Armbrust, EV;Berges, JA;Rokhsar, DS
通讯作者：
Rokhsar, DS
影响因子：
1.5
作者：
Garcia-Silva, Maria Rosa;Frugier, Magali;Cayota, Alfonso
通讯作者：
Cayota, Alfonso
影响因子：
15
作者：
Gertman, Ronen;Ben Shir, Ira;Schmidt, Asher
通讯作者：
Schmidt, Asher
影响因子：
14.9
作者：
Lagesen K;Hallin P;Rødland EA;Staerfeldt HH;Rognes T;Ussery DW
通讯作者：
Ussery DW
DOI：
10.1007/978-1-61779-083-6_3
发表时间：
2011-01-01
期刊：
MICRORNAS IN DEVELOPMENT: METHODS AND PROTOCOLS
影响因子：
--
作者：
Lopez-Gomollon, Sara
通讯作者：
Lopez-Gomollon, Sara