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Bioedit Company clustalx algorithm
Clustalx Algorithm, supplied by Bioedit Company, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/clustalx+algorithm/clustalw+algorithm/pmc06904764-236-10-13
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Article Title: In vitro biosynthesis of 3-mercaptolactate by lactate dehydrogenases.
Article Snippet: 3-Mercaptolactate (3ML) is an interesting mercapto compound with special regard to the biosynthesis of new polythioesters (PTEs).. Unfortunately, this thioester analog of lactic acid is currently not commercially available.. For this reason, we developed an in vitro biosynthesis pathway to convert cysteine to 3-mercaptopyruvate (3MPy), which is then rapidly and efficiently converted to 3ML by suitable lactate dehydrogenases (LDHs).

Article Title: Phototrophic biofilm communities and adaptation to growth on ancient archaeological surfaces
Article Snippet: Sequences were aligned using CLUSTALX algorithm implemented in Bioedit 7.0.9.0 (Hall 1999), refined and used to generate a phylogenetic tree.

Article Title: Conversion of cysteine to 3-mercaptopyruvic acid by bacterial aminotransferases.
Article Snippet: 3-Mercaptopyruvate (3MPy), a structural analog of 3-mercaptopropionic acid, is a precursor compound for biosynthesis of polythioesters in bacteria.. The cost-effectiveness and sustainability of the whole process could be greatly improved by using the cysteine degradation pathway for an intracellular supply of 3MPy.. Transamination of cysteine to its corresponding α-keto acid 3MPy is catalyzed by cysteine aminotransferases (CAT).

Article Title: Method for diagnosis and monitoring of viral infection by analysis of viral transrenal nucleic acids in urine
Article Snippet: The multiple alignments and the creation of consensus sequences of the various subtypes were performed through the use of ClustalX algorithm included in the BioEdit package (mbio.ncsu.edu/BioEdit/bioedit.html).

Article Title: Integrative systematics and ecology of a new deep-sea family of tanaidacean crustaceans
Article Snippet: Alignment of COI was performed on DNA codons using the ClustalX algorithm in BioEdit (written by Tom Hall, Ibis Theraputics).

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Article Title: Patterns of diversity and adaptation in Glomeromycota from three prairie grasslands.
Article Snippet: Arbuscular mycorrhizal (AM) fungi are widespread root symbionts that often improve the fitness of their plant hosts.. We tested whether local adaptation in mycorrhizal symbioses would shape the community structure of these root symbionts in a way that maximizes their symbiotic functioning.. We grew a native prairie grass (Andropogon gerardii) with all possible combinations of soils and AM fungal inocula from three different prairies that varied in soil characteristics and disturbance history (two native prairie remnants and one recently restored).

Article Title: A Genomic Imprinting Model of Termite Caste Determination: Not Genetic but Epigenetic Inheritance Influences Offspring Caste Fate.
Article Snippet: Eusocial insects exhibit the most striking example of phenotypic plasticity.. There has been a long controversy over the factors determining caste development of individuals in social insects.. Here we demonstrate that parental phenotypes influence the social status of offspring not through genetic inheritance but through genomic imprinting in termites.

Article Title: Loss of males from mixed-sex societies in termites
Article Snippet: .. Consensus sequences were aligned using the ClustalX algorithm [ ] from the BioEdit 7.0.4.1 sequence editor [ ] and corrected manually. ..



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( a ) Western blot of protein extracts from neuroblastoma cells transfected with constructions containing YFP as control, P2X6 and N-terminal defective P2X6 fused with YFP (N14P2X6-YPF). ( b ) Confocal images and orthogonal views of N2a neuroblastoma cells transfected with YFP, P2X6-YFP and N14P2X6-YPF. Subcellular distribution of both YFP and N14P2X6-YFP were exclusively cytosolic, whereas P2X6-YFP shows cytoplasmic and nuclear location. Scale Bar 10 μm. ( c ) Western blots of protein extracts from neuroblastoma cells transfected with constructions containing different P2X6 subregions fused with c-myc epitope and labelled with anti-myc antibody. ( d ) Confocal images and orthogonal views of N2a neuroblastoma cells transfected with P2X6-myc, P2X6 extracellular region (EXT-P2X6-myc), and second transmembrane domain (TM-P2X6-myc). Subcellular distribution of TM-P2X6-myc were exclusively cytosolic, whereas EXT-P2X6-myc shows cytoplasmic and nuclear location. Scale bar 10 μm. ( e ) Neuroblastoma cells transfected with GCL-myc and P2X6 extracellular domain fused with GCL-myc (EXT-P2X6-GCL-myc) constructions show different locations. Subcellular distribution GCL-myc were exclusively cytosolic, whereas EXT-P2X6-GCL-myc shows cytoplasmic and nuclear location. Scale bar 10 μM. ( f ) Protein alignment of human P2X subunits using <t>ClustalX</t> algorithm and sequence analysis by PFAM database of protein families revealed the presence of WD40 domain exclusively in P2X6 subunit.
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( a ) Western blot of protein extracts from neuroblastoma cells transfected with constructions containing YFP as control, P2X6 and N-terminal defective P2X6 fused with YFP (N14P2X6-YPF). ( b ) Confocal images and orthogonal views of N2a neuroblastoma cells transfected with YFP, P2X6-YFP and N14P2X6-YPF. Subcellular distribution of both YFP and N14P2X6-YFP were exclusively cytosolic, whereas P2X6-YFP shows cytoplasmic and nuclear location. Scale Bar 10 μm. ( c ) Western blots of protein extracts from neuroblastoma cells transfected with constructions containing different P2X6 subregions fused with c-myc epitope and labelled with anti-myc antibody. ( d ) Confocal images and orthogonal views of N2a neuroblastoma cells transfected with P2X6-myc, P2X6 extracellular region (EXT-P2X6-myc), and second transmembrane domain (TM-P2X6-myc). Subcellular distribution of TM-P2X6-myc were exclusively cytosolic, whereas EXT-P2X6-myc shows cytoplasmic and nuclear location. Scale bar 10 μm. ( e ) Neuroblastoma cells transfected with GCL-myc and P2X6 extracellular domain fused with GCL-myc (EXT-P2X6-GCL-myc) constructions show different locations. Subcellular distribution GCL-myc were exclusively cytosolic, whereas EXT-P2X6-GCL-myc shows cytoplasmic and nuclear location. Scale bar 10 μM. ( f ) Protein alignment of human P2X subunits using <t>ClustalX</t> algorithm and sequence analysis by PFAM database of protein families revealed the presence of WD40 domain exclusively in P2X6 subunit.
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( a ) Western blot of protein extracts from neuroblastoma cells transfected with constructions containing YFP as control, P2X6 and N-terminal defective P2X6 fused with YFP (N14P2X6-YPF). ( b ) Confocal images and orthogonal views of N2a neuroblastoma cells transfected with YFP, P2X6-YFP and N14P2X6-YPF. Subcellular distribution of both YFP and N14P2X6-YFP were exclusively cytosolic, whereas P2X6-YFP shows cytoplasmic and nuclear location. Scale Bar 10 μm. ( c ) Western blots of protein extracts from neuroblastoma cells transfected with constructions containing different P2X6 subregions fused with c-myc epitope and labelled with anti-myc antibody. ( d ) Confocal images and orthogonal views of N2a neuroblastoma cells transfected with P2X6-myc, P2X6 extracellular region (EXT-P2X6-myc), and second transmembrane domain (TM-P2X6-myc). Subcellular distribution of TM-P2X6-myc were exclusively cytosolic, whereas EXT-P2X6-myc shows cytoplasmic and nuclear location. Scale bar 10 μm. ( e ) Neuroblastoma cells transfected with GCL-myc and P2X6 extracellular domain fused with GCL-myc (EXT-P2X6-GCL-myc) constructions show different locations. Subcellular distribution GCL-myc were exclusively cytosolic, whereas EXT-P2X6-GCL-myc shows cytoplasmic and nuclear location. Scale bar 10 μM. ( f ) Protein alignment of human P2X subunits using ClustalX algorithm and sequence analysis by PFAM database of protein families revealed the presence of WD40 domain exclusively in P2X6 subunit.

Journal: PLoS ONE

Article Title: Age-Related Nuclear Translocation of P2X6 Subunit Modifies Splicing Activity Interacting with Splicing Factor 3A1

doi: 10.1371/journal.pone.0123121

Figure Lengend Snippet: ( a ) Western blot of protein extracts from neuroblastoma cells transfected with constructions containing YFP as control, P2X6 and N-terminal defective P2X6 fused with YFP (N14P2X6-YPF). ( b ) Confocal images and orthogonal views of N2a neuroblastoma cells transfected with YFP, P2X6-YFP and N14P2X6-YPF. Subcellular distribution of both YFP and N14P2X6-YFP were exclusively cytosolic, whereas P2X6-YFP shows cytoplasmic and nuclear location. Scale Bar 10 μm. ( c ) Western blots of protein extracts from neuroblastoma cells transfected with constructions containing different P2X6 subregions fused with c-myc epitope and labelled with anti-myc antibody. ( d ) Confocal images and orthogonal views of N2a neuroblastoma cells transfected with P2X6-myc, P2X6 extracellular region (EXT-P2X6-myc), and second transmembrane domain (TM-P2X6-myc). Subcellular distribution of TM-P2X6-myc were exclusively cytosolic, whereas EXT-P2X6-myc shows cytoplasmic and nuclear location. Scale bar 10 μm. ( e ) Neuroblastoma cells transfected with GCL-myc and P2X6 extracellular domain fused with GCL-myc (EXT-P2X6-GCL-myc) constructions show different locations. Subcellular distribution GCL-myc were exclusively cytosolic, whereas EXT-P2X6-GCL-myc shows cytoplasmic and nuclear location. Scale bar 10 μM. ( f ) Protein alignment of human P2X subunits using ClustalX algorithm and sequence analysis by PFAM database of protein families revealed the presence of WD40 domain exclusively in P2X6 subunit.

Article Snippet: P2X receptors protein sequences were obtained from NCBI (P2X1, P51575; P2X2, Q9UBL9; P2X3, P56373; P2X4, Q99571; P2X5, Q93086; P2X6, O15547 and P2X7, Q99572), aligned using ClustalX algorithm in CLC Genomics Workbench v3.6.5 (CLC bio) and compared with full PFAM database plugin v22.0.

Techniques: Western Blot, Transfection, Control, Sequencing