A Bioinformatics Analysis Reveals a Group of MocR Bacterial Transcriptional Regulators Linked to a Family of Genes Coding for Membrane Proteins by Teresa Milano, Sebastiana Angelaccio, Angela Tramonti, Martino Luigi Di Salvo, Roberto Contestabile, Stefano Pascarella

“…An analysis of the multiple sequence alignments of their wHTH and AAT domains suggested the presence of specificity-determining positions (SDPs). …”
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Isolation and Characterization of Gram-Negative Bacterial Species from Pasteurized Dairy Products: Potential Risk to Consumer Health by Solomon H. Mariam

“…None tested positive for phenotypic gelatin hydrolysis but exhibited alpha- or beta-hemolysis. Sequence alignments of 16S rRNA gene partial sequences suggested up to 99% sequence similarities to subspecies of Salmonella enterica. …”
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Epidemiological survey on tick borne diseases of pet dogs in korla, northwestern china by Jianhui CHEN, Shen SHI 2, Nannan CUI, Lixin SU, Ziqi WANG, Fang LI, Shang ZHAN, Guoyu ZHAO, Yuanzhi WANG, Xijiang WANG

“…We used primers targeting the 16S ribosomal (16S rRNA) gene for detection of Anaplasma bovis species, targeting the small subunit 18S ribosomal RNA(18S rRNA) gene for detection of Hepatozoon canis species and targeting htpAB-associated repetitive element gene (IS111) for detection of Coxiella burnetii species The nested PCR(nPCR)-positive products were sequenced, aligned, and phylogenetically analyzed. three tick-borne pathogens were detected in the samples. …”
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Clinico¬pathological features and phylogenetic analysis of rabies infection in local Iraqi breed cattle by M. H. Hussain, Kh. A. Mansour, S. A. A. Al-Redah, A. J. Abid

“…The phylogenetic analysis revealed variations at a total of 24 places in multiple sequence alignments between two field rabies virus nucleotide sequences from the current investigation (>MW893685 and >MW893684) and 48 GenBank nucleotide sequences, including the reference strain (>NC_001542). …”

Post-processing enhances protein secondary structure prediction with second order deep learning and embeddings by Sotiris Chatzimiltis, Michalis Agathocleous, Vasilis J. Promponas, Chris Christodoulou

“…Finally, we showed that input representations from embeddings can perform equally well as representations extracted from multiple sequence alignments.…”
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Species classification of Tabanus (Diptera: Tabanidae) in Western Thailand: Integrating DNA barcoding and modern morphometrics by Tanasak Changbunjong, Thekhawet Weluwanarak, Sedthapong Laojun, Tanawat Chaiphongpachara

“…To enhance the reliability of species identification, DNA barcoding was employed to analyze 30 cytochrome c oxidase subunit 1 (cox1) gene sequences from 15 horse fly species, which were then compared with sequences in the GenBank and BOLD databases. Most cox1 sequences aligned with existing data, with similarity percentages ranging from 96% to 100%. …”
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Complex bacterial diversity of Guaymas Basin hydrothermal sediments revealed by synthetic long-read sequencing (LoopSeq) by John E. Hinkle, John E. Hinkle, Jeffrey P. Chanton, Molly A. Moynihan, Molly A. Moynihan, S. Emil Ruff, S. Emil Ruff, Andreas Teske

“…In general, LoopSeq-derived 16S rRNA gene sequences aligned consistently with reference sequences in GenBank; however, chimeras were prevalent in sequences as affiliated with the thermophilic Candidatus Desulfofervidus and Thermodesulfobacterium, and in smaller numbers within the sulfur-oxidizing family Beggiatoaceae. …”
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Identification and expression analysis of c-type and g-type lysozymes genes after Aeromonas hydrophila infection in African catfish by Hasan Nasrullah, Yanti Inneke Nababan, Dwi Hany Yanti, Dian Hardiantho, Sri Nuryati, Muhammad Zairin Junior, Julie Ekasari, Alimuddin Alimuddin

“…Catalytic and other conserved residues were identified by multiple sequences alignment and they showed high similarity with other teleost fish species. mRNA levels of the genes were analyzed by using qPCR method and their expressions in the spleen, liver, and head kidney were rapidly modulated after Aeromonas hydrophila injection, with different patterns were observed in each organ. …”
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