title: Transcriptome Analysis of the Chrysanthemum Foliar Nematode, Aphelenchoides ritzemabosi (Aphelenchida: Aphelenchoididae).
abstract: The chrysanthemum foliar nematode (CFN), Aphelenchoides ritzemabosi, is a plant parasitic nematode that attacks many plants. In this study, a transcriptomes of mixed-stage population of CFN was sequenced on the Illumina HiSeq 2000 platform. 68.10 million Illumina high quality paired end reads were obtained which generated 26,817 transcripts with a mean length of 1,032 bp and an N50 of 1,672 bp, of which 16,467 transcripts were annotated against six databases. In total, 20,311 coding region sequences (CDS), 495 simple sequence repeats (SSRs) and 8,353 single-nucleotide polymorphisms (SNPs) were predicted, respectively. The CFN with the most shared sequences was B. xylophilus with 16,846 (62.82%) common transcripts and 10,543 (39.31%) CFN transcripts matched sequences of all of four plant parasitic nematodes compared. A total of 111 CFN transcripts were predicted as homologues of 7 types of carbohydrate-active enzymes (CAZymes) with plant/fungal cell wall-degrading activities, fewer transcripts were predicted as homologues of plant cell wall-degrading enzymes than fungal cell wall-degrading enzymes. The phylogenetic analysis of GH5, GH16, GH43 and GH45 proteins between CFN and other organisms showed CFN and other nematodes have a closer phylogenetic relationship. In the CFN transcriptome, sixteen types of genes orthologues with seven classes of protein families involved in the RNAi pathway in C. elegans were predicted. This research provides comprehensive gene expression information at the transcriptional level, which will facilitate the elucidation of the molecular mechanisms of CFN and the distribution of gene functions at the macro level, potentially revealing improved methods for controlling CFN.
authors.affiliation: Laboratory of Plant Nematology and Research Center of Nematodes of Plant Quarantine, Department of Plant Pathology, College of Agriculture, South China Agricultural University, Guangzhou, People's Republic of China.
authors.forename: Yu
authors.initials: Y
authors.lastname: Xiang
authors.affiliation: Laboratory of Plant Nematology and Research Center of Nematodes of Plant Quarantine, Department of Plant Pathology, College of Agriculture, South China Agricultural University, Guangzhou, People's Republic of China.
authors.forename: Dong-Wei
authors.initials: DW
authors.lastname: Wang
authors.affiliation: Laboratory of Plant Nematology and Research Center of Nematodes of Plant Quarantine, Department of Plant Pathology, College of Agriculture, South China Agricultural University, Guangzhou, People's Republic of China.
authors.forename: Jun-Yi
authors.initials: JY
authors.lastname: Li
authors.affiliation: Laboratory of Plant Nematology and Research Center of Nematodes of Plant Quarantine, Department of Plant Pathology, College of Agriculture, South China Agricultural University, Guangzhou, People's Republic of China.
authors.forename: Hui
authors.initials: H
authors.lastname: Xie
authors.affiliation: Laboratory of Plant Nematology and Research Center of Nematodes of Plant Quarantine, Department of Plant Pathology, College of Agriculture, South China Agricultural University, Guangzhou, People's Republic of China.
authors.forename: Chun-Ling
authors.initials: CL
authors.lastname: Xu
authors.affiliation: Laboratory of Plant Nematology and Research Center of Nematodes of Plant Quarantine, Department of Plant Pathology, College of Agriculture, South China Agricultural University, Guangzhou, People's Republic of China.
authors.forename: Yu
authors.initials: Y
authors.lastname: Li
mesh_terms: D000818:Animals; D005786:Gene Expression Regulation / Q000502:physiology*; D015801:Helminth Proteins / Q000096:biosynthesis* / Q000235:genetics; D009348:Nematoda / Q000235:genetics / Q000378:metabolism*; D010802:Phylogeny; D020641:Polymorphism, Single Nucleotide; D059467:Transcriptome / Q000502:physiology*
chemical_list: D015801:Helminth Proteins