Genotypic and phenotypic characterization of antimicrobial resistance in Salmonella strains isolated from both No-Antibiotics-Ever (NAE) and conventional broiler complexes by Yagya Adhikari, Dianna V. Bourassa, Sabin Poudel, Matthew A. Bailey, Richard J. Buhr, Kenneth S. Macklin

“…ResFinder was used to identify AMR genes from whole genome sequences while the phenotypic resistance of 14 different antibiotics was determined using broth microdilution method. …”
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Sequence-based GWAS in 180,000 German Holstein cattle reveals new candidate variants for milk production traits by Ana-Marija Križanac, Christian Reimer, Johannes Heise, Zengting Liu, Jennie E. Pryce, Jörn Bennewitz, Georg Thaller, Clemens Falker-Gieske, Jens Tetens

“…In order to fully exploit the power of GWAS, one should aim at very large samples combined with whole-genome sequence data. These can also come with both computational and time burdens, as presented in our study. …”
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The trend of phylogenetic and epitope variations of SARS-CoV-2 Omicron sub-lineages in Iran by Mehdi Shabani, Ahmad Nejati, Jila Yavarian, Jila Yavarian, Kaveh Sadeghi, Sevrin Zadheidar, Akram Sadat Ahmadi, Monire Ghadirali, Arghavan Zebardast, Adel Abedi, Mohammad Hossein Najmi, Nazanin-Zahra Shafiei-Jandaghi, Talat Mokhtari-Azad

“…The present study evaluated and compared these important variations among different Omicron sub-lineages in Iran.MethodologyFrom October 2023 to August 2024, high coverage whole genome sequences of 49 SARS-CoV-2 strains were subjected to phylogenetic analysis and evaluation of B cell, CD4+, and CD8+ T cell epitopes in Iran National Influenza Centre.ResultsThe phylogenetic tree exhibited eight Nextstrain clades (21L, 22F, 23B, 23H, 23D, 24A, 24B, and 24C) in 48 studied strains, and one recombinant strain (XDK.1). …”
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Genetic diversity of Plasmodium falciparum reticulocyte binding protein homologue-5, which is a potential malaria vaccine candidate: baseline data from areas of varying malaria end... by Angelina J. Kisambale, Dativa Pereus, Salehe S. Mandai, Beatus M. Lyimo, Catherine Bakari, Gervas A. Chacha, Ruth B. Mbwambo, Ramadhan Moshi, Daniel A. Petro, Daniel P. Challe, Misago D. Seth, Rashid A. Madebe, Rule Budodo, Sijenunu Aaron, Daniel Mbwambo, Abdallah Lusasi, Stella Kajange, Samwel Lazaro, Ntuli Kapologwe, Celine I. Mandara, Deus S. Ishengoma

“…Methods This study utilized secondary data of 697 whole-genome sequences which were generated by the MalariaGEN Community Network. …”
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