Journal: BMC Genomics

Article Title: Partial duplication of the APBA2 gene in chromosome 15q13 corresponds to duplicon structures

doi: 10.1186/1471-2164-4-15

Figure Lengend Snippet: Physical mapping of APBA2 and PCR-RFLP analysis of APBA2 duplications. A. An expanded view of the 15q12-q14 region containing distal duplication breakpoints is shown. Breakpoints BP3 and BP5 are depicted as jagged, hatched structures; BP4 is not thus shown but its position is indicated by an arrow over the map. STS marker positions are indicated on the map by closed circles, and arrows over the map indicate transcriptional orientation for genes in this region. YAC and BAC clone locations are shown below the map; YAC 764C6 is located in contig WC-153 and 962D11 is in WC-699. Closed circles within clones reflects the inclusion and position of specific STS markers shown above. B. PCR amplification of an APBA2-specific STS using genomic, YAC and BAC templates is shown. Position of clone pairs relative to cytogenetic banding and public sequence assemblies is indicated. Product consistent with genomic template is present only in clones from the region just telomeric to BP3. C. PCR from genomic or BAC clone template, followed by restriction with either Hinf l or Ava ll is shown. Unique banding patterns, corresponding to single nucleotide differences between copies, may be observed for the intact locus and each of the two duplication copies. RT-PCR using adult or fetal cDNA reveals the pattern corresponding to the intact locus only.

Article Snippet: All exons are now accurately predicted in the NCBI (Genbank: NT_010363) and Celera assemblies, while the EnsembI assembly lacks the putative first exon.

Techniques: Marker, Clone Assay, Amplification, Sequencing, Reverse Transcription Polymerase Chain Reaction

Journal: ZooKeys

Article Title: Two new species of Platensina Enderlein ( Diptera , Tephritidae , Tephritinae , Dithrycini ) from India

doi: 10.3897/zookeys.1092.80645

Figure Lengend Snippet: Evolutionary divergence among the Indian species of Platensina .

Article Snippet: NCBI GenBank accession number – MW448367 (1♂, India: Kerala, Kannur, Aaralam, 13.i.2020, David, K.

Techniques:

Journal: ACS chemical biology

Article Title: The Tyrosine O -Prenyltransferase SirD Catalyzes S- , C -, and N -Prenylations on Tyrosine and Tryptophan Derivatives

doi: 10.1021/cb400691z

Figure Lengend Snippet: Kinetic parameters for SirD with tyrosine, tryptophan, and their analogues.

Article Snippet: L. maculans sirD (NCBI GenBank AY553235.1 ) was optimized for heterologous expression in E. coli and synthesized by Genscript ( Figure S2 ).

Techniques: Analogues

Journal: ACS chemical biology

Article Title: The Tyrosine O -Prenyltransferase SirD Catalyzes S- , C -, and N -Prenylations on Tyrosine and Tryptophan Derivatives

doi: 10.1021/cb400691z

Figure Lengend Snippet: HPLC chromatograms of preparative enzymatic assays for isolation and purification. Each aromatic amino acid was incubated with DMAPP and SirD. (a) 4-Mercaptophenylalanine, (b) tryptophan, (c) 4-methyltryptophan, (d) 4-methoxytryptophan, and (e) 7-methyltryptophan.

Article Snippet: L. maculans sirD (NCBI GenBank AY553235.1 ) was optimized for heterologous expression in E. coli and synthesized by Genscript ( Figure S2 ).

Techniques: Isolation, Purification, Incubation

Journal: ACS chemical biology

Article Title: The Tyrosine O -Prenyltransferase SirD Catalyzes S- , C -, and N -Prenylations on Tyrosine and Tryptophan Derivatives

doi: 10.1021/cb400691z

Figure Lengend Snippet: Products from incubation of tyrosine or tryptophan analogues and DMAPP with SirD. Structures for compounds with asterisks were determined previously.37,38

Article Snippet: L. maculans sirD (NCBI GenBank AY553235.1 ) was optimized for heterologous expression in E. coli and synthesized by Genscript ( Figure S2 ).

Techniques: Incubation, Analogues

Journal: ACS chemical biology

Article Title: The Tyrosine O -Prenyltransferase SirD Catalyzes S- , C -, and N -Prenylations on Tyrosine and Tryptophan Derivatives

doi: 10.1021/cb400691z

Figure Lengend Snippet: Regiochemistry for alkylation of the indole nucleus by SirD and 4-DMATS.

Article Snippet: L. maculans sirD (NCBI GenBank AY553235.1 ) was optimized for heterologous expression in E. coli and synthesized by Genscript ( Figure S2 ).

Techniques:

Journal: Biology

Article Title: Molecular and Functional Characterization of Neuropeptide F Receptor in Pomacea canaliculata : Roles in Feeding and Digestion and Communication with the Insulin Pathway

doi: 10.3390/biology14091241

Figure Lengend Snippet: Amino acid (aa) sequence alignments ( A ) and neighbor-joining phylogeny of PcNPFR ( B ) against orthologs from other species. Identical residues among receptors were shaded in black, while 80% and 60% conserved substitutions in pink and cyan, respectively. Horizontal bars denoted TM helix 1–7. Typical rhodopsin-like GPCR motifs were marked by red boxes. In the phylogenetic tree, dots at branch nodes represented bootstrap values (50%). A scale bar indicated that the average number of aa substitutions per site was 0.2. The D. melanogaster neuropeptide F receptor was chosen as the outgroup. The aligned NPFR/NPYR homologs were retrieved from the NCBI database under the following accession numbers: XP_025096430.1 [ Pomacea canaliculata ], XP_005089880.1 [ Aplysia californica ], XP_055874125.1 [ Biomphalaria glabrata ], XP_046372073.2 [ Haliotis rufescens ], XP_041369772.1 [ Gigantopelta aegis ], XP_050395368.1 [ Patella vulgata ], GFO06936.1 [ Plakobranchus ocellatus ], GFR99678.1 [ Elysia marginata ], XP_022289835.1 [ Crassostrea virginica ], XP_048746931.2 [ Ostrea edulis ], XP_052224883.1 [ Dreissena polymorpha ], XP_006509657.1 [ Mus musculus ], NP_524245.3 [ Drosophila melanogaster ], XP_054206094.1 [ Homo sapiens ].

Article Snippet: The amino acid (aa) sequence of PcNPFR (GenBank accession number, XP_025096430.1 ) were selected as the query to map the National Center for Biotechnology Information (NCBI) GenBank database via BlastP ( https://blast.ncbi.nlm.nih.gov/Blast.cgi?PROGRAM=blastp&PAGE_TYPE=BlastSearch&LINK_LOC=blasthome accessed on 14 July 2025) and retrieve available NPFR orthologs from other species.

Techniques: Sequencing