Mapping genomic regions affecting sensitivity to bovine respiratory disease on chromosome X using selective DNA pooling by Ehud Lipkin, Maria Giuseppina Strillacci, Miri Cohen-Zinder, Harel Eitam, Moran Yishay, Morris Soller, Carlotta Ferrari, Alessandro Bagnato, Ariel Shabtay

“…The relatively large number of affecting regions and the candidate genes on the sex chromosome may explain part of the higher susceptibility of males and provide genomic and management targets for mitigating this disease.…”
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The genome sequence of a beetle, Brachypterus glaber (Newman, 1834) [version 1; peer review: 2 approved] by Michael F. Geiser, Talay Namintraporn, Freya Read, Maxwell V.L. Barclay

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Genomic characterization of foodborne Salmonella enterica and Escherichia coli isolates from Saboba district and Bolgatanga Municipality Ghana. by Gabriel Temitope Sunmonu, Frederick Adzitey, Erkison Ewomazino Odih, Boniface Awini Tibile, Rejoice Ekli, Martin Aduah, Anderson O Oaikhena, Olabisi C Akinlabi, Akebe Luther King Abia, Daniel Gyamfi Amoako, Iruka N Okeke

“…Salmonella enterica and Escherichia coli are well-known bacteria commonly associated with foodborne illnesses in humans and animals. Genomic characterization of these pathogens provides valuable insights into their evolution, virulence factors and resistance determinants. …”
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Real-world enrollment for a prospective clinico-genomic database using a pragmatic technology-enabled platform by Alexia Exarchos, Ariel B. Bourla, Maneet Kaur, Katja Schulze, Sophia Maund, Yi Cao, Yihua Zhao, Elizabeth H. Williams, Sarah C. Gaffey, Richard Zuniga, Shaily Lakhanpal, Vladan Antic, Michelle Doral, Johanna Sy, Neal J. Meropol, Anne C. Chiang

“…Background: Discovery and incorporation of predictive and prognostic biomarkers enhance outcomes for patients with cancer. Clinico-genomic datasets, which retrospectively link real-world clinical data to tumor sequencing data, are important resources for biomarker research, which has historically relied on robust research infrastructures exclusive to large academic centers. …”
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Uncovering the genetic basis of milk production traits in Mexican Holstein cattle based on individual markers and genomic windows. by José G Cortes-Hernández, Adriana García-Ruiz, Francisco Peñagaricano, Hugo H Montaldo, Felipe J Ruiz-López

“…The analysis included genotypic data on 7,713 cows and 577 sires, with information on 88,911 markers previously imputed and filtered by quality control. Genomic scans via the single-step genomic best linear unbiased prediction method were performed using BLUPF90 software. …”
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A genomic duplication spanning multiple P450s contributes to insecticide resistance in the dengue mosquito Aedes aegypti by Bacot, Tiphaine, Haberkorn, Chloe, Guilliet, Joseph, Cattel, Julien, Kefi, Mary, Nadalin, Louis, Filee, Jonathan, Boyer, Frederic, Gaude, Thierry, Laporte, Frederic, Tutagata, Jordan, Vontas, John, Dusfour, Isabelle, Bonneville, Jean-Marc, David, Jean-Philippe

“…Combining RNA-seq and whole genome pool-seq identified a 220 Kb genomic duplication enhancing the expression of multiple contiguous cytochrome P450s in the resistant line. …”
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The genome sequence of Cory’s shearwater, Calonectris borealis (Cory, 1881) [version 1; peer review: 2 approved] by Joan Ferrer Obiol, Guillem Izquierdo Arànega, Marta Riutort León, Raül Ramos Garcia, Jacob González-Solís Bou, Julio Rozas Liras

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Personalized prediction of anticancer potential of non-oncology drugs through learning from genome derived molecular pathways by Xiaobao Dong, Huanhuan Liu, Ting Tong, Liuxing Wu, Jianhua Wang, Tianyi You, Yongjian Wei, Xianfu Yi, Hongxi Yang, Jie Hu, Haitao Wang, Xiaoyan Wang, Mulin Jun Li

“…Abstract Advances in cancer genomics have significantly expanded our understanding of cancer biology. …”
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Integrative evidence reveals a new species of Hysterothylacium (Nematoda: Ascaridoidea), with the characterization of its complete mitochondrial genome by Hui-Xia Chen, Hai-Xia Qiao, Wen-Ting Zhao, Xiao-Hong Gu, Liang Li

“…The complete mitochondrial genome of the new species was sequenced and annotated, which represents the first mitogenomic data for the genus Hysterothylacium, and also for the family Raphidascarididae. …”
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Genome-wide transcriptome analysis and drug target discovery reveal key genes and pathways in thyroid cancer metastasis by Minjing Zou, Amal Qattan, Monther Al-Alwan, Hazem Ghebeh, Naif Binjumah, Latifa Al-Haj, Khalid S. A. Khabar, Abdulmohsen Altaweel, Falah Almohanna, Abdullah M. Assiri, Abdelilah Aboussekhra, Ali S. Alzahrani, Ali S. Alzahrani, Yufei Shi

“…However, the mechanisms are still poorly understood. MethodsWe performed genome-wide transcriptome analysis comparing gene expression profile of metastatic thyroid cancer cells (Met) with primary tumor cells established from transgenic mouse models of papillary thyroid cancer (PTC), follicular thyroid cancer (FTC), poorly differentiated thyroid cancer (PDTC), and anaplastic thyroid cancer (ATC).ResultsGenes involved in tumor microenvironment (TME), inflammation, and immune escape were significantly overexpressed in Met cells. …”
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Genomic signatures of habitat isolation and paleo-climate unveil the “island-like” pattern in the glasshouse plant Rheum nobile by Hum Kala Rana, Santosh Kumar Rana, Hang Sun, Dong Luo

“…The Himalaya and the Hengduan Mountains, known for their ‘Sky Islands’ ecosystems, offer a unique opportunity to study genomic differentiation of endemic plants. While there is growing research on the genetic mechanisms underlying the distinctiveness of species in these regions, gaps remain in understanding the specific genomic processes shaping the “island-like” genetic structure of Rheum nobile. …”
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Genomic characterization of antimicrobial-resistance and virulence factors in Salmonella isolates obtained from pig farms in Antioquia, Colombia. by María Isabel García-Álvarez, Juana L Vidal, Pilar Donado-Godoy, Jared Smith, Nikki Shariat, María Fernanda Valencia, Luis M Gómez-Osorio, Sara López-Osorio, Jenny J Chaparro-Gutiérrez

“…A total of 28 isolates of Salmonella spp. were included, which presented phenotypic resistance to more than one antibiotic used in pig farms. Whole genome sequencing (WGS) was performed in the Unit of Genomic of Agrosavia using an automated pipeline from the GHRU- Sanger Institute, employing the Illumina MiSeq platform.…”
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Genome-wide identification and characterization of transcription factors involved in defense responses against Sclerotinia sclerotiorum in Brassica juncea by Xu Yang, Shaomin Guo, Hairun Jin, Jinze Zhang, Lijing Xiao, Qingjing Ouyang, Xu Long, Zhongbin Yan, Entang Tian

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Celebrating the 20th anniversary of the first Xanthomonas genome sequences – how genomics revolutionized taxonomy, provided insight into the emergence of pathogenic bacteria, enabled new fundamental discoveries and helped developing novel control measures – a perspective from the French network on Xanthomonads by Koebnik, Ralf, Cesbron, Sophie, Chen, Nicolas W. G., Fischer-Le Saux, Marion, Hutin, Mathilde, Jacques, Marie-Agnès, Noël, Laurent D., Perez-Quintero, Alvaro, Portier, Perrine, Pruvost, Olivier, Rieux, Adrien, Szurek, Boris

Subjects: “…Genomics…”
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Genomic analysis of Enterobacter cloacae complex from Southern Thailand reveals insights into multidrug resistance genotypes and genetic diversity by Thunchanok Yaikhan, Kamonnut Singkhamanan, Pawarisa Luenglusontigit, Arnon Chukamnerd, Natakorn Nokchan, Nutwadee Chintakovid, Sarunyou Chusri, Rattanaruji Pomwised, Monwadee Wonglapsuwan, Kittinun Leetanaporn, Surasak Sangkhathat, Komwit Surachat

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Genomic insights and comparative analysis of Colletotrichum species associated with anthracnose fruit rot and crown rot of strawberry in North Carolina by Tika B. Adhikari, Norman Muzhinji, Ashley N. Philbrick, Frank J. Louws, Frank J. Louws

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Genome-wide identification and expression analysis of the PIN gene family in the pepper pedicel abscission zone and during root development by HE Lei, YAN Xi, LAI Wei, LIU Chongzheng, YANG Hong, HE Jianwen

“…[Methods] PIN genes were identified through whole-genome screening of pepper, followed by comprehensive bioinformatics analysis. …”
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Genome-wide identification and characterization of the bZIP family in the Mangrove Plant Kandelia obovata and its role in response to stress by Yuchong Yi, Yuting Qiu, Hongyao Hu, Dandan Qin, Hechen Huang, Taiping Chen, Wenqi Zha, Yingjia Shen

“…Results In the K. obovata genome, 66 bZIP genes were identified and named KobZIP1 to KobZIP66, categorized based on their chromosomal locations. …”
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Genetic determinants of skin ageing: a systematic review and meta-analysis of genome-wide association studies and candidate genes by Chloe Wong, Jun Yan Ng, Yang Yie Sio, Fook Tim Chew

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