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The sRNAome mining revealed existence of unique signature small RNAs derived from 5.8SrRNA from Piper nigrum and other plant lineages.

Identifieur interne : 000900 ( Main/Exploration ); précédent : 000899; suivant : 000901

The sRNAome mining revealed existence of unique signature small RNAs derived from 5.8SrRNA from Piper nigrum and other plant lineages.

Auteurs : Srinivasan Asha [Inde] ; E V Soniya [Inde]

Source :

RBID : pubmed:28145468

Descripteurs français

English descriptors

Abstract

Small RNAs derived from ribosomal RNAs (srRNAs) are rarely explored in the high-throughput data of plant systems. Here, we analyzed srRNAs from the deep-sequenced small RNA libraries of Piper nigrum, a unique magnoliid plant. The 5' end of the putative long form of 5.8S rRNA (5.8SLrRNA) was identified as the site for biogenesis of highly abundant srRNAs that are unique among the Piperaceae family of plants. A subsequent comparative analysis of the ninety-seven sRNAomes of diverse plants successfully uncovered the abundant existence and precise cleavage of unique rRF signature small RNAs upstream of a novel 5' consensus sequence of the 5.8S rRNA. The major cleavage process mapped identically among the different tissues of the same plant. The differential expression and cleavage of 5'5.8S srRNAs in Phytophthora capsici infected P. nigrum tissues indicated the critical biological functions of these srRNAs during stress response. The non-canonical short hairpin precursor structure, the association with Argonaute proteins, and the potential targets of 5'5.8S srRNAs reinforced their regulatory role in the RNAi pathway in plants. In addition, this novel lineage specific small RNAs may have tremendous biological potential in the taxonomic profiling of plants.

DOI: 10.1038/srep41052
PubMed: 28145468
PubMed Central: PMC5286533


Affiliations:


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Le document en format XML

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<term>Argonaute Proteins (genetics)</term>
<term>Base Sequence (MeSH)</term>
<term>Gene Library (MeSH)</term>
<term>Nucleic Acid Conformation (MeSH)</term>
<term>Phytophthora (pathogenicity)</term>
<term>Piper nigrum (genetics)</term>
<term>Piper nigrum (metabolism)</term>
<term>Piper nigrum (parasitology)</term>
<term>Plant Leaves (genetics)</term>
<term>Plant Leaves (metabolism)</term>
<term>Plant Leaves (parasitology)</term>
<term>Plants (genetics)</term>
<term>Plants (metabolism)</term>
<term>RNA Cleavage (MeSH)</term>
<term>RNA Interference (MeSH)</term>
<term>RNA, Plant (genetics)</term>
<term>RNA, Plant (metabolism)</term>
<term>RNA, Ribosomal, 5.8S (chemistry)</term>
<term>RNA, Ribosomal, 5.8S (genetics)</term>
<term>RNA, Small Nuclear (genetics)</term>
<term>RNA, Small Nuclear (metabolism)</term>
<term>Sequence Alignment (MeSH)</term>
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<term>ARN des plantes (génétique)</term>
<term>ARN des plantes (métabolisme)</term>
<term>ARN ribosomique 5.8S (composition chimique)</term>
<term>ARN ribosomique 5.8S (génétique)</term>
<term>Alignement de séquences (MeSH)</term>
<term>Banque de gènes (MeSH)</term>
<term>Clivage de l'ARN (MeSH)</term>
<term>Conformation d'acide nucléique (MeSH)</term>
<term>Feuilles de plante (génétique)</term>
<term>Feuilles de plante (métabolisme)</term>
<term>Feuilles de plante (parasitologie)</term>
<term>Interférence par ARN (MeSH)</term>
<term>Petit ARN nucléaire (génétique)</term>
<term>Petit ARN nucléaire (métabolisme)</term>
<term>Phytophthora (pathogénicité)</term>
<term>Piper nigrum (génétique)</term>
<term>Piper nigrum (métabolisme)</term>
<term>Piper nigrum (parasitologie)</term>
<term>Plantes (génétique)</term>
<term>Plantes (métabolisme)</term>
<term>Protéines Argonaute (génétique)</term>
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<term>Piper nigrum</term>
<term>Plant Leaves</term>
<term>Plants</term>
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<term>ARN des plantes</term>
<term>ARN ribosomique 5.8S</term>
<term>Feuilles de plante</term>
<term>Petit ARN nucléaire</term>
<term>Piper nigrum</term>
<term>Plantes</term>
<term>Protéines Argonaute</term>
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<term>Plant Leaves</term>
<term>Plants</term>
<term>RNA, Plant</term>
<term>RNA, Small Nuclear</term>
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<term>ARN des plantes</term>
<term>Feuilles de plante</term>
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<term>Piper nigrum</term>
<term>Plantes</term>
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<term>Feuilles de plante</term>
<term>Piper nigrum</term>
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<keywords scheme="MESH" qualifier="parasitology" xml:lang="en">
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<term>Plant Leaves</term>
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<term>Phytophthora</term>
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<term>Gene Library</term>
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<term>Sequence Alignment</term>
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<term>Banque de gènes</term>
<term>Clivage de l'ARN</term>
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<div type="abstract" xml:lang="en">Small RNAs derived from ribosomal RNAs (srRNAs) are rarely explored in the high-throughput data of plant systems. Here, we analyzed srRNAs from the deep-sequenced small RNA libraries of Piper nigrum, a unique magnoliid plant. The 5' end of the putative long form of 5.8S rRNA (5.8S
<sub>L</sub>
rRNA) was identified as the site for biogenesis of highly abundant srRNAs that are unique among the Piperaceae family of plants. A subsequent comparative analysis of the ninety-seven sRNAomes of diverse plants successfully uncovered the abundant existence and precise cleavage of unique rRF signature small RNAs upstream of a novel 5' consensus sequence of the 5.8S rRNA. The major cleavage process mapped identically among the different tissues of the same plant. The differential expression and cleavage of 5'5.8S srRNAs in Phytophthora capsici infected P. nigrum tissues indicated the critical biological functions of these srRNAs during stress response. The non-canonical short hairpin precursor structure, the association with Argonaute proteins, and the potential targets of 5'5.8S srRNAs reinforced their regulatory role in the RNAi pathway in plants. In addition, this novel lineage specific small RNAs may have tremendous biological potential in the taxonomic profiling of plants.</div>
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<sub>L</sub>
rRNA) was identified as the site for biogenesis of highly abundant srRNAs that are unique among the Piperaceae family of plants. A subsequent comparative analysis of the ninety-seven sRNAomes of diverse plants successfully uncovered the abundant existence and precise cleavage of unique rRF signature small RNAs upstream of a novel 5' consensus sequence of the 5.8S rRNA. The major cleavage process mapped identically among the different tissues of the same plant. The differential expression and cleavage of 5'5.8S srRNAs in Phytophthora capsici infected P. nigrum tissues indicated the critical biological functions of these srRNAs during stress response. The non-canonical short hairpin precursor structure, the association with Argonaute proteins, and the potential targets of 5'5.8S srRNAs reinforced their regulatory role in the RNAi pathway in plants. In addition, this novel lineage specific small RNAs may have tremendous biological potential in the taxonomic profiling of plants.</AbstractText>
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