Molecular cloning and characterization of cathepsin L from freshwater mussel, Cristaria plicata

Hu, Xiaojuan; Hu, Xiaobo; Hu, Baoqing; Wen, Chengping; Xie, Yanhai; Wu, Dan; Tao, Zhiying; Li, Aihua; Gao, Qian

doi:10.1016/j.fsi.2014.07.005

Cited by 27 publications

(13 citation statements)

References 46 publications

(43 reference statements)

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“…Cathepsins B-like and L-like cysteine proteases are found in Caenorhabditis elegans 4 , 5 . Similar proteases are also detected in some invertebrates 6 . Most proteomic research and related studies on cysteine cathepsins have focused on vertebrates, particularly mammals, including primates and rodents 7 , 8 .…”

Section: Introductionsupporting

confidence: 57%

Evolutionary History of Cathepsin L (L-like) Family Genes in Vertebrates

Zhou¹,

Zhang

et al. 2015

Int. J. Biol. Sci.

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Cathepsin L family, an important cysteine protease found in lysosomes, is categorized into cathepsins B, F, H, K, L, S, and W in vertebrates. This categorization is based on their sequence alignment and traditional functional classification, but the evolutionary relationship of family members is unclear. This study determined the evolutionary relationship of cathepsin L family genes in vertebrates through phylogenetic construction. Results showed that cathepsins F, H, S and K, and L and V were chronologically diverged. Tandem-repeat duplication was found to occur in the evolutionary history of cathepsin L family. Cathepsin L in zebrafish, cathepsins S and K in xenopus, and cathepsin L in mice and rats underwent evident tandem-repeat events. Positive selection was detected in cathepsin L-like members in mice and rats, and amino acid sites under positive selection pressure were calculated. Most of these sites appeared at the connection of secondary structures, suggesting that the sites may slightly change spatial structure. Severe positive selection was also observed in cathepsin V (L2) of primates, indicating that this enzyme had some special functions. Our work provided a brief evolutionary history of cathepsin L family and differentiated cathepsins S and K from cathepsin L based on vertebrate appearance. Positive selection was the specific cause of differentiation of cathepsin L family genes, confirming that gene function variation after expansion events was related to interactions with the environment and adaptability.

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Section: Introductionsupporting

confidence: 57%

Evolutionary History of Cathepsin L (L-like) Family Genes in Vertebrates

Zhou¹,

Zhang

et al. 2015

Int. J. Biol. Sci.

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“…fucata as well as a cloned cDNA from C . plicata [ 9 , 93 , 94 ]. The identification of candidate genes for environmental adaptation indicates that the dynamics of species survival should be further explored.…”

Section: Resultsmentioning

confidence: 99%

“…The complete mitochondrial genome sequence and functional analysis of a few oxidative stress and immunity- related genes are the only available reports of C . plicata genetic information [ 5 – 9 ]. Although the available information increases our understanding of the phylogeny and molecular basis of the innate immune response in C .…”

Section: Introductionmentioning

confidence: 99%

Sequencing, De Novo Assembly, and Annotation of the Transcriptome of the Endangered Freshwater Pearl Bivalve, Cristaria plicata, Provides Novel Insights into Functional Genes and Marker Discovery

et al. 2016

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BackgroundThe freshwater mussel Cristaria plicata (Bivalvia: Eulamellibranchia: Unionidae), is an economically important species in molluscan aquaculture due to its use in pearl farming. The species have been listed as endangered in South Korea due to the loss of natural habitats caused by anthropogenic activities. The decreasing population and a lack of genomic information on the species is concerning for environmentalists and conservationists. In this study, we conducted a de novo transcriptome sequencing and annotation analysis of C. plicata using Illumina HiSeq 2500 next-generation sequencing (NGS) technology, the Trinity assembler, and bioinformatics databases to prepare a sustainable resource for the identification of candidate genes involved in immunity, defense, and reproduction.ResultsThe C. plicata transcriptome analysis included a total of 286,152,584 raw reads and 281,322,837 clean reads. The de novo assembly identified a total of 453,931 contigs and 374,794 non-redundant unigenes with average lengths of 731.2 and 737.1 bp, respectively. Furthermore, 100% coverage of C. plicata mitochondrial genes within two unigenes supported the quality of the assembler. In total, 84,274 unigenes showed homology to entries in at least one database, and 23,246 unigenes were allocated to one or more Gene Ontology (GO) terms. The most prominent GO biological process, cellular component, and molecular function categories (level 2) were cellular process, membrane, and binding, respectively. A total of 4,776 unigenes were mapped to 123 biological pathways in the KEGG database. Based on the GO terms and KEGG annotation, the unigenes were suggested to be involved in immunity, stress responses, sex-determination, and reproduction. A total of 17,251 cDNA simple sequence repeats (cSSRs) were identified from 61,141 unigenes (size of >1 kb) with the most abundant being dinucleotide repeats.ConclusionsThis dataset represents the first transcriptome analysis of the endangered mollusc, C. plicata. The transcriptome provides a comprehensive sequence resource for the conservation of genetic information in this species and enrichment of the genetic database. The development of molecular markers will assist in the genetic improvement of C. plicata.

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“…glomerata transcriptome study ( Table 2 ), as well as in the haemocytes of C . virginica and the mussel Cristaria plicata [ 114 , 118 ]. Furthermore, cathepsin B and C expression was shown to be induced in the clam Sinonovacula constricta by the bacterium V .…”

Section: Resultsmentioning

confidence: 99%

Transcriptome Analysis of the Sydney Rock Oyster, Saccostrea glomerata: Insights into Molluscan Immunity

et al. 2016

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BackgroundOysters have important ecological functions in their natural environment, acting as global carbon sinks and improving water quality by removing excess nutrients from the water column. During their life-time oysters are exposed to a variety of pathogens that can cause severe mortality in a range of oyster species. Environmental stressors encountered in their habitat can increase the susceptibility of oysters to these pathogens and in general have been shown to impact on oyster immunity, making immune parameters expressed in these marine animals an important research topic.ResultsPaired-end Illumina high throughput sequencing of six S. glomerata tissues exposed to different environmental stressors resulted in a total of 484,121,702 paired-end reads. When reads and assembled transcripts were compared to the C. gigas genome, an overall low level of similarity at the nucleotide level, but a relatively high similarity at the protein level was observed. Examination of the tissue expression pattern showed that some transcripts coding for cathepsins, heat shock proteins and antioxidant proteins were exclusively expressed in the haemolymph of S. glomerata, suggesting a role in innate immunity. Furthermore, analysis of the S. glomerata ORFs showed a wide range of genes potentially involved in innate immunity, from pattern recognition receptors, components of the Toll-like signalling and apoptosis pathways to a complex antioxidant defence mechanism.ConclusionsThis is the first large scale RNA-Seq study carried out in S. glomerata, showing the complex network of innate immune components that exist in this species. The results confirmed that many of the innate immune system components observed in mammals are also conserved in oysters; however, some, such as the TLR adaptors MAL, TRIF and TRAM are either missing or have been modified significantly. The components identified in this study could help explain the oysters’ natural resilience against pathogenic microorganisms encountered in their natural environment.

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Molecular cloning and characterization of cathepsin L from freshwater mussel, Cristaria plicata

Cited by 27 publications

References 46 publications

Evolutionary History of Cathepsin L (L-like) Family Genes in Vertebrates

Evolutionary History of Cathepsin L (L-like) Family Genes in Vertebrates

Sequencing, De Novo Assembly, and Annotation of the Transcriptome of the Endangered Freshwater Pearl Bivalve, Cristaria plicata, Provides Novel Insights into Functional Genes and Marker Discovery

Transcriptome Analysis of the Sydney Rock Oyster, Saccostrea glomerata: Insights into Molluscan Immunity

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