Ultra-deep sequencing reveals the microRNA expression pattern of the human stomach

While microRNAs (miRNAs) play important roles in tissue differentiation and in maintaining basal physiology, little is known about the miRNA expression levels in stomach tissue. Alterations in the miRNA profile can lead to cell deregulation, which can induce neoplasia. A small RNA library of stomach...

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Bibliographic Details
Published in:	PloS one Vol. 5; no. 10; p. e13205
Main Authors:	Ribeiro-dos-Santos, Ândrea, Khayat, André S, Silva, Artur, Alencar, Dayse O, Lobato, Jessé, Luz, Larissa, Pinheiro, Daniel G, Varuzza, Leonardo, Assumpção, Monica, Assumpção, Paulo, Santos, Sidney, Zanette, Dalila L, Silva, Jr, Wilson A, Burbano, Rommel, Darnet, Sylvain
Format:	Journal Article
Language:	English
Published:	United States Public Library of Science 08-10-2010 Public Library of Science (PLoS)
Subjects:	B cells Blood Cancer Deoxyribonucleic acid Deregulation DNA DNA methylation DNA sequencing Gastric cancer Gene expression Gene Expression Profiling Gene sequencing Genetics and Genomics Genetics and Genomics/Bioinformatics Genetics and Genomics/Cancer Genetics Genetics and Genomics/Comparative Genomics Genetics and Genomics/Functional Genomics Genetics and Genomics/Medical Genetics Genomes Humans Leukemia Metastasis MicroRNA MicroRNAs MicroRNAs - genetics miRNA Ovarian cancer Pancreatic cancer Polymerase chain reaction Reverse Transcriptase Polymerase Chain Reaction Ribonucleic acid RNA Sequence Analysis, RNA Stem cells Stomach Stomach - metabolism Tissues Umbilical cord
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Summary:	While microRNAs (miRNAs) play important roles in tissue differentiation and in maintaining basal physiology, little is known about the miRNA expression levels in stomach tissue. Alterations in the miRNA profile can lead to cell deregulation, which can induce neoplasia. A small RNA library of stomach tissue was sequenced using high-throughput SOLiD sequencing technology. We obtained 261,274 quality reads with perfect matches to the human miRnome, and 42% of known miRNAs were identified. Digital Gene Expression profiling (DGE) was performed based on read abundance and showed that fifteen miRNAs were highly expressed in gastric tissue. Subsequently, the expression of these miRNAs was validated in 10 healthy individuals by RT-PCR showed a significant correlation of 83.97% (P<0.05). Six miRNAs showed a low variable pattern of expression (miR-29b, miR-29c, miR-19b, miR-31, miR-148a, miR-451) and could be considered part of the expression pattern of the healthy gastric tissue. This study aimed to validate normal miRNA profiles of human gastric tissue to establish a reference profile for healthy individuals. Determining the regulatory processes acting in the stomach will be important in the fight against gastric cancer, which is the second-leading cause of cancer mortality worldwide.
Bibliography:	ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23 ObjectType-Article-2 ObjectType-Feature-1 Conceived and designed the experiments: ÂRdS ASK AS SEBS WASJ RB SD. Performed the experiments: ÂRdS ASK AS MBA PA SEBS WASJ RB SD. Analyzed the data: DOA JL LL DGP LV DLZ WASJ SD. Contributed reagents/materials/analysis tools: DOA JL LL DGP LV. Wrote the paper: ÂRdS ASK AS SEBS RB SD.
ISSN:	1932-6203 1932-6203
DOI:	10.1371/journal.pone.0013205