Journal: PLoS ONE

Article Title: 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

doi: 10.1371/journal.pone.0148622

Figure Lengend Snippet: A C . plicata visceral mass transcriptome was obtained using an Illumina HiSeq2500 NGS platform. The raw reads obtained were preprocessed using the Sickle software tool (quality: 20, length: 40) and Fastq_filter software to obtain clean reads. Trinity assembly (K-mer, 25; minimum contig length; 200) and TGICL clustering (Identity; 94%; overlap; 30 bp) generated 374,794 unigenes. The unigenes were used for functional annotation using the PANM, Unigene, COG, GO, and KEGG databases and structural annotation for SSR detection.

Article Snippet: A summary of the top-hit InterPro domains identified 1,374 unigenes with zinc finger, C2H2-like domains.

Techniques: Software, Generated, Functional Assay

Journal: PLoS ONE

Article Title: 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

doi: 10.1371/journal.pone.0148622

Figure Lengend Snippet: (A) Score distribution of BLAST hits for each unigene with a cutoff E-value of 1E -5. (B) E-value distribution of each unigene using BLAST hits with a cutoff E-value of 1E -5. (C) Identity distribution of the top BLAST hits for each unigene. (D) Similarity distribution of the top BLAST hits for each unigene. (E) Lengths of unigenes compared with the presence or absence of BLAST hits.

Article Snippet: A summary of the top-hit InterPro domains identified 1,374 unigenes with zinc finger, C2H2-like domains.

Techniques:

Journal: PLoS ONE

Article Title: 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

doi: 10.1371/journal.pone.0148622

Figure Lengend Snippet: List of the top-hit 40 InterPro domains in C . plicata transcriptome.

Article Snippet: A summary of the top-hit InterPro domains identified 1,374 unigenes with zinc finger, C2H2-like domains.

Techniques: Reverse Transcription

Journal: PLoS ONE

Article Title: 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

doi: 10.1371/journal.pone.0148622

Figure Lengend Snippet: Out of 374,794 annotated unigenes, 40,196 sequences had a COG classification from among the 25 COG categories (excluding the multi category).

Article Snippet: A summary of the top-hit InterPro domains identified 1,374 unigenes with zinc finger, C2H2-like domains.

Techniques:

Journal: PLoS ONE

Article Title: 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

doi: 10.1371/journal.pone.0148622

Figure Lengend Snippet: (A) An overlap model of the annotated unigenes assigned to biological processes, molecular functions, and cellular components based on GO function. (B) Numbers of unigenes assigned to GO term annotations.

Article Snippet: A summary of the top-hit InterPro domains identified 1,374 unigenes with zinc finger, C2H2-like domains.

Techniques:

Journal: PLoS ONE

Article Title: 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

doi: 10.1371/journal.pone.0148622

Figure Lengend Snippet: The C . plicata visceral mass unigenes were assigned to KEGG pathways (inner circle). The total number of enzymes ascribed within each KEGG pathway is shown in the outer circle. Each pathway is represented by a different color.

Article Snippet: A summary of the top-hit InterPro domains identified 1,374 unigenes with zinc finger, C2H2-like domains.

Techniques:

Journal: BMC Plant Biology

Article Title: Transcriptomic analysis reveals flavonoid biosynthesis of Syringa oblata Lindl. in response to different light intensity

doi: 10.1186/s12870-019-2100-8

Figure Lengend Snippet: The significantly enriched KEGG pathway of Unigenes in Syringa oblata Lindl

Article Snippet: Fig. 4 The significantly enriched KEGG pathway of Unigenes in Syringa oblata Lindl

Techniques:

Journal: BMC Plant Biology

Article Title: Transcriptomic analysis reveals flavonoid biosynthesis of Syringa oblata Lindl. in response to different light intensity

doi: 10.1186/s12870-019-2100-8

Figure Lengend Snippet: Pearson partial correlation between differential metabolites and expressed Unigenes involved in the biosynthesis of flavonoid in Syringa oblata Lindl: left: negative correlation; right: positive correlation

Article Snippet: Fig. 4 The significantly enriched KEGG pathway of Unigenes in Syringa oblata Lindl

Techniques: