Comparative profiling of hepatopancreas transcriptomes in satiated and starving Pomacea canaliculataReport as inadecuate




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BMC Genetics

, 18:18

Functional genetics

Abstract

BackgroundAlthough Pomacea canaliculata is native to South and Central America, it has become one of the most abundant invasive species worldwide and causes extensive damage to agriculture and horticulture. Conventional physical and chemical techniques have been used to eliminate P. canaliculata, but the effects are not ideal. Therefore, it is important to devise a new method based on a greater understanding of the biology of P. canaliculata. However, the molecular mechanisms underlying digestion and absorption in P. canaliculata are not well understood due to the lack of available genomic information for this species, particularly for digestive enzyme genes.

ResultsIn the present study, hepatopancreas transcriptome sequencing produced over 223 million high-quality reads, and a global de novo assembly generated a total of 87,766 unique transcripts unigenes, of which 19,942 22.7% had significant similarities to proteins in the UniProt database. In addition, 296,675 annotated sequences were associated with Gene Ontology GO terms. A Kyoto Encyclopedia of Genes and Genomes KEGG pathway enrichment was performed for the unique unigenes, and 262 pathways p-value < 10 in P. canaliculata were found to be predominantly related to plant consumption and coarse fiber digestion and absorption. These transcripts were classified into four large categories: hydrolase, transferase, isomerase and cytochrome P450. The Reads Per Kilobase of transcript per Million mapped reads RPKM analysis showed that there were 523 down-regulated unigenes and 406 up-regulated unigenes in the starving apple snails compared with the satiated apple snails. Several important genes are associated with digestion and absorption in plants: endo-beta-1, 4-glucanase, xylanase, cellulase, cellulase EGX1, cellulase EGX3 and G-type lysozyme genes were identified. The qRT-PCR results confirmed that the expression patterns of these genes except for the longipain gene were consistent with the RNA-Seq results.

ConclusionsOur results provide a more comprehensive understanding of the molecular genes associated with hepatopancreas functioning. Differentially expressed genes corresponding to critical metabolic pathways were detected in the transcriptome of starving apple snails compared with satiated apple snails. In addition to the cellulase gene, other genes were identified that may be important factors in plant matter metabolism in P. canaliculata, and this information has the potential to expedite the study of digestive physiology in apple snails.

KeywordsPomacea canaliculata Hepatopancreas, Transcriptome Digestion AbbreviationsCOGCluster of orthologous groups

FDRFalse discovery rate

GOGene ontology

MISAMicrosatellite

NGSNext-generation sequencing

NRNonredundant

P. canaliculataPomacea canaliculata

RPKMReads per kb per million reads

WEGOWeb gene ontology annotation plot

Electronic supplementary materialThe online version of this article doi:10.1186-s12863-017-0485-7 contains supplementary material, which is available to authorized users.

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Author: Lei Yang - Tian-yin Cheng - Fei-yan Zhao

Source: https://link.springer.com/







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