Journal: Frontiers in Plant Science

Article Title: Overexpression of TaPIP1A enhances drought and salt stress tolerance in Arabidopsis: cross-species conservation and molecular dynamics

doi: 10.3389/fpls.2024.1425700

Figure Lengend Snippet: Phylogenetic Analysis of PIP1 Subfamily Aquaporin Proteins. (A) Sequence alignment of PIP proteins from hexaploid wheat and T. urartu. The amino acids highlighted in the same color indicate identical residues, while those in different colors represent variations. The six putative transmembrane regions (TM1–6) in PIP1 are marked with solid lines above the sequence; (B) Phylogenetic tree of TaPIP1 and its homologous proteins from different species. The full-length amino acid sequences of PIP1 were aligned using MEGA 6.06 software, and the phylogenetic tree was constructed using the neighbor-joining method with 1,000 bootstrap replicates.

Article Snippet: This study provided Gene Ontology (GO) annotations for the TaPIP1 family-encoded proteins through InterPro to reveal their functions in biological processes such as stress response and drought tolerance.

Techniques: Sequencing, Software, Construct

Journal: Frontiers in Plant Science

Article Title: Overexpression of TaPIP1A enhances drought and salt stress tolerance in Arabidopsis: cross-species conservation and molecular dynamics

doi: 10.3389/fpls.2024.1425700

Figure Lengend Snippet: Tissue-Specific Expression Analysis of TaPIP1 Genes in Wheat at Heading Stage. (A) TaPIP1A ; (B) TaPIP1B ; (C) TaPIP1D . The reference gene used was wheat TaActin gene. All other values were measured relative to the expression of TaActin in roots. Vertical bars represent standard deviations (SD). Each experiment was repeated three times.

Article Snippet: This study provided Gene Ontology (GO) annotations for the TaPIP1 family-encoded proteins through InterPro to reveal their functions in biological processes such as stress response and drought tolerance.

Techniques: Expressing

Journal: PLoS ONE

Article Title: Genomic Analyses of Cladophialophora bantiana , a Major Cause of Cerebral Phaeohyphomycosis Provides Insight into Its Lifestyle, Virulence and Adaption in Host

doi: 10.1371/journal.pone.0161008

Figure Lengend Snippet: C . bantiana UM 956 genomic and assembly features.

Article Snippet: Annotated protein coding regions (Interpro) , 9,324.

Techniques: Sequencing

Journal: PLoS ONE

Article Title: Genomic Analyses of Cladophialophora bantiana , a Major Cause of Cerebral Phaeohyphomycosis Provides Insight into Its Lifestyle, Virulence and Adaption in Host

doi: 10.1371/journal.pone.0161008

Figure Lengend Snippet: A total of 7,185 of protein-coding genes were annotated by KOG. The proteins were assigned into different KOG functionary categories as shown in the pie chart.

Article Snippet: Annotated protein coding regions (Interpro) , 9,324.

Techniques:

Journal: PLOS ONE

Article Title: CANDy: Automated analysis of domain architectures in carbohydrate-active enzymes

doi: 10.1371/journal.pone.0306410

Figure Lengend Snippet: The workflow consists of four distinct steps: (I) Searching and fetching all protein sequences included in the query CAZy (sub)family, (II) filtering of unique sequences present in the UniParc database, (III) search for protein domain information and iterative clean-up of the results and (IV) database construction and protein domain annotation. CANDy only requires the CAZy (sub)family of interest as input and offers additional options for more specialized queries.

Article Snippet: Since InterPro provides annotations for all UniParc proteins, it stands as the most extensive source of information on protein domains and site and it provides annotations for nearly all CAZy proteins.

Techniques:

Journal: Database: The Journal of Biological Databases and Curation

Article Title: The harmonizome: a collection of processed datasets gathered to serve and mine knowledge about genes and proteins

doi: 10.1093/database/baw100

Figure Lengend Snippet: Datasets providing evidence for associations between genes and ‘structural features’

Article Snippet: InterPro Predicted Protein Domain Annotations , ( ) .

Techniques: