In silico analysis of mitochondrial DNA genes: implication for conservation of Tor putitora (Hamilton, 1822) by Kushal Thakur, Deepika Sharma, Ankita Sharma, Amit Kumar Sharma, Danish Mahajan, Bhavna Brar, Hishani Kumari, Sandeep Kumar, Madhu Bala, Sunil Kumar, Rakesh Kumar

“…The present study aimed to examine the haplotypic diversity, genetic variation and population structure of T. putitora isolates using COI and Cyt b gene sequences submitted in GenBank. Bioinformatic analysis was carried out using 106 COI and 183 Cyt b gene sequences as well as 2 reference genome sequences. …”
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Molecular Identification of Fusarium proliferatum from toenails: A case report by Sazan Jamal Gharib, Nawroz Abdul-razzak Tahir

“…For final identification sequencing of DNA has been carried out by [Macrogen Korea] using forward primer ITS1, The obtained consensus of query sequence was compared with the ITS DNA database on the BLAST homepage, aligned and diagnosed strain deposited to the GenBank and we received an accession number (MK112619). …”
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A novel approach for detecting Salmonella enterica strains frequently attributed to human illness—development and validation of the highly pathogenic Salmonella (HPS) multiplex PCR... by Dayna M. Harhay, Kerry D. Brader, Tatum S. Katz, Gregory P. Harhay, James L. Bono, Joseph M. Bosilevac, Tommy L. Wheeler

“…The utility of the resulting HPS assay for identifying SoC was examined in silico, using BLAST to determine the distribution of gene targets among closed Salmonella genome sequences in GenBank (n = 2,192 representing 148 serotypes) and by assaying 1,303 Salmonella (69 serotypes), isolated from FSIS regulatory samples.Results and discussionComparison of serotypes identified by the assay as HPS, with those identified as SoC, produced an Area Under the Curve (AUC) of 92.2% with a specificity of 96% and a positive predictive value of 97.4%, indicating the HPS assay has strong ability to identify SoC. …”
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Molecular Detection and Phylogenetic Analysis of the alkB Gene in Klebsiella oxytoca Strains Isolated from the Gut of Tenebrio molitor by Tsitsi Lynn Mupamhadzi, Oleen Machona, Farisai Chidzwondo, Rumbidzai Mangoyi

“…To detect the presence of the alkB gene in the isolated bacterial strains, a set of primers used in the amplification of this gene was manually designed from the conserved regions of the alkB nucleotide sequences of eleven bacterial species from GenBank. TCOFFE online tool was used to align the alkB sequences of the bacteria, while Jalview and ConSurf were used to view the alignment. …”
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人类Foxm1b基因的原核表达、抗体制备及其对肝癌细胞中Foxm1b蛋白的识别 by 唐保东, 刘思纯, 徐雅, 曾志荣, 胡品津

“…【目的】构建人类Foxm1b基因的原核表达载体，表达并纯化蛋白，制备多克隆抗体，并用此抗体检测肝癌细胞中Foxm1b基因的表达，为进一步研究Foxm1b基因的功能奠定基础。【方法】从GenBank中下载人类Foxm1b基因全长cDNA序列并用Pegene软件分析其可能的抗原表位，设计引物．应用RT—PCR获得含抗原表位的Foxm1b基因片段，重组人原核表达载体pET-28a，在大肠杆菌BL-21（DE31中诱导表达，应用亲和层析法获得纯度较高的原核表达蛋白并免疫大鼠制备多克隆抗体，用ELISA检测抗体滴度并用免疫细胞化学的方法检测此抗体对肝癌细胞中天然Foxm1b蛋白的识别。…”
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环尾狐猴源弓形虫的检测与鉴定 by 单 芬 李康信 徐春忠 陈 武 彭仕明 李婉萍 李国清

“…用一步法PCR自6份样本中均扩增出529 bp目的片段,测序和Blast分析显示,该目的片段与GenBank中登录号为KC607824和DQ779189的刚地弓形虫(<i>Toxoplasma gondii</i>)核苷酸序列相似性最高,均为98.7%; 与国际标准强毒虫株RH的核苷酸相似性为98.5%。…”
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Ex Situ Conservation, DNA Barcoding and Enzymatic Potential Evaluation of Macrofungi (Basidiomycota, Ascomycota) from Vietnam by Nadezhda V. Psurtseva, Anna A. Kiyashko, Svetlana V. Senik, Thi Ha Giang Pham

“…From 2012 to 2023, 785 strains of macrofungi from National Parks of Vietnam were preserved in the LE-BIN collection, 327 of which were barcoded with the sequences deposited in the NCBI GenBank. A taxonomic analysis demonstrated that many of the preserved isolates are potentially new or poorly studied species, representing a useful resource for taxonomical studies and a search for new medicinal mushrooms. …”
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Prevalence and phylogenetic analysis of Mycobacterium avium subsp. paratuberculosis in cattle in Mosul city, Iraq by Sadam D. Hasan, Mohammad A. Altaliby, Amer H. Taha, Karam M. Abdulrazzaq

“…Furthermore, in this study, two sequences of Mycobacterium avium subsp. paratuberculosis were deposited in GenBank (PP976335.1 and PP976335.1); phylogenetically the study strains showed 100% identity near MAP strain in Saudi Arabia under the accession number (MN928512.1) and 99.85% identity with Spain, Germany and South Korea strain accession numbers (FJ775181.1, CP053068.1 and CP033909.1) respectively. …”
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Complete genome sequence of Pseudarthrobacter sp. NIBRBAC000502770 from coal mine of Hongcheon on Republic of Korea by Min-Kyu Park, Yeong-Jun Park, Myung-Suk Kang, Min-Ha Kim, Soo-Young Kim, Jae-Ho Shin

“…The genome and plasmid are available in GenBank (CP041198.1, CP014497.1), offering insights into bioremediation and plant growth in metal-contaminated environments.…”
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Fast and Sensitive Detection of SARS-CoV-2 Nucleic Acid Using a Rapid Detection System Free of RNA Extraction by Liang Ma, Yanyan Fan, Xiaomu Kong, Yongwei Jiang, Hong Huang, Meimei Zhao, Yi Liu, Peng Gao, Yong Cui, Yongtong Cao

“…The limit of detection (LoD) was determined using a negative nasopharyngeal swab matrix spiked with different concentrations of SARS-CoV-2 virus; a total of 734,337 reference sequences of viral genomes from GenBank were used for the in-silico analysis to assess the inclusivity of the assay. …”
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Molecular Prevalence and Identification of Ehrlichia canis and Anaplasma platys from Dogs in Nay Pyi Taw Area, Myanmar by Myint Myint Hmoon, Lat Lat Htun, May June Thu, Hla Myet Chel, Yu Nandi Thaw, Shwe Yee Win, Nyein Chan Soe, Yadanar Khaing, Su Su Thein, Saw Bawm

“…These amplicon sequences were compared with other sequences from GenBank. Among the 400 blood samples from dogs, 3 (0.75%) were positive for E. canis and 1 (0.25%) was positive for A. platys. …”
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The First Complete Chloroplast Genome Sequence of <i>Secale strictum</i> subsp. <i>africanum</i> Stapf (<i>Poaceae</i>), the Putative Ancestor of the Genus <i>Secale</i> by Lidia Skuza, Piotr Androsiuk, Romain Gastineau, Magdalena Achrem, Łukasz Paukszto, Jan Paweł Jastrzębski

“…The genome can be accessed on GenBank with the accession number OQ700974. This work sheds light on the evolutionary history of <i>Secale</i> and contributes to our understanding of chloroplast genomics in cereal ancestors, with potential applications in improving cereal crop resilience, advancing breeding strategies, and informing conservation efforts for genetic diversity.…”
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Molecular detection of Escherichia coli from ovine aborted fetuses in Mosul city, Iraq by Aamer Y. Al-Chalaby, Omer K. Alhankawe, Balsam Y. Rasheed

“…Nevertheless, the zapA gene was present in 40% of the isolates. GenBank accession numbers PQ191249.1 and PQ191250.1 were registered for the 23SrRNA gene. …”
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Development and validation of a species-specific environmental DNA (eDNA) primer for endangered Asian arowana, Scleropages formosus (Teleostei: Osteoglossidae) for law enforcement... by Nurul Affiqah Edora Mohd-Azhar, Haslawati Baharuddin, Mohamad-Sufiyan Salmi, Noor Faizah Ismail, Amatul-Samahah Md. Ali, Syazwan Saidin, Adibah Abu-Bakar

“…. • The species-specific primer of S. formosus was designed based on selected sequences obtained from GenBank • This report presents the potential application of eDNA in the management of the Malaysian 686 CITES Act for conservation monitoring of the Asian Arowana • The detection and wild population monitoring is possible through the eDNA method as complementary tools…”
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Evaluation of 16S rRNA genes sequences and genome-based analysis for identification of non-pathogenic Yersinia by Angelina A. Kislichkina, Angelika A. Sizova, Yury P. Skryabin, Svetlana V. Dentovskaya, Andrey P. Anisimov

“…The taxonomic affiliations of 34 genomes based on core SNPs and the ANI results did not match those specified in the GenBank database (NCBI). The intragenic homology of the 16S rRNA gene copies exceeded 99.5% in complete genomes, but above 50% of genomes have four or more variants of the 16S rRNA gene. …”
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sORFdb – a database for sORFs, small proteins, and small protein families in bacteria by Julian M. Hahnfeld, Oliver Schwengers, Lukas Jelonek, Sonja Diedrich, Franz Cemič, Alexander Goesmann

“…To this end, small proteins were extracted from annotated bacterial genomes in the GenBank database. Subsequently, they were quality-filtered, compared, and complemented with proteins from Swiss-Prot, UniProt, and SmProt to ensure reliable identification and characterization of small proteins. …”
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Molecular Detection of Anaplasma phagocytophilum in Small Mammals and Infesting Ticks in Laikipia County, Kenya by Erick Titus Mosha, Joseph K. N. Kuria, Moses Otiende, Isaac Lekolool

“…All the haplotype sequences for A. phagocytophilum from this study were submitted and registered in GenBank under the accession numbers OQ308965–OQ308976. …”
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基于16S rRNA基因对濒危脊椎动物鉴定的可行性 by 蒋晓霞 1 徐博文 1 李伟刚 1 邵建宏 1 周傲白雪 1 唐泰山 2 赵福振 1 苗丽 3 黄海超 1 罗宝正 1

“…结果显示：建立的检测方法灵敏度可以达0.001 ng/μL，其中62个（39个物种）样本扩增成功，57个样本（34个物种）测序结果与GenBank数据库中的参考序列具有较高相似度，可以鉴定到种的水平。测序所得的基因序列与参考序列的种内遗传距离为0~0.5%、种间遗传距离为1.0%~39.9%，最小种间遗传距离大于最大种内遗传距离，即存在明显的条形码间隔；另外5个样本（5个物种）测序结果在属内种间高度一致，只能鉴定到属的水平。…”
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Identification and Genetic Diversity Analysis of Cinnamomum parthenoxylon (Jack) Meisn Species in Song Hinh Protection Forest, Vietnam Based on Three Chloroplast Gene Regions by Dinh Duy Vu, Mai Phuong Pham, Ngoc Huyen Dang, Xuan Dac Le, Hung Cuong Dang, Huu Thuc Nguyen, Dang Hoi Nguyen

“…According to ML phylogenetic analyses, all samples in the Song Hinh protection forest are closely related to C. parthenoxylon in GenBank, with robust supporting values. Moreover, only 0.25% (2 haplotypes) of the sequences showed polymorphism in the matK region, whereas 0.78% (4 haplotypes) in the rbcL region. …”
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Taxonomic refinement of Bacillus thuringiensis by Nagham Shiekh Suliman, Reza Talaei-Hassanloui, Hamid Abachi, Sadegh Zarei, Ebrahim Osdaghi

“…By October 2023, whole genome sequences (WGS) of 885 bacterial strains were labeled as B. thuringiensis in the NCBI GenBank database. This study investigates the taxonomic authenticity of those strains using DNA similarity indexes, i.e., average nucleotide identity (ANI) and digital DNA–DNA hybridization (dDDH). …”
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