Nisin A-producing Lactococcus cremoris formulations for pre- and post-milking teat disinfection modulate the bovine milk microbiota by Alessandra Gazzola, Camilla Ceccarani, Bianca Castiglioni, Filippo Biscarini, Stefano Morandi, Tiziana Silvetti, Renata Piccinini, Milena Brasca, Paola Cremonesi

“…Microbial communities were investigated by cultural and sequence-based methods, and analyzed through bioinformatic and statistical approaches. …”
Get full text

Potential pathogenic and protective genotypes and phenotypes of vitamin D binding protein in multiple sclerosis by Suhail Al-Shammri, Suhail Al-Shammri, Arpita Chattopadhyay, Abu Salim Mustafa

“…DNA regions covering the targeted mutations were amplified by PCR, sequenced by the Sanger method, and analyzed to determine GC genotypes and phenotypes. …”
Get full text

Soil chemical factors contributing to differences in bacterial communities among tea field soils and their relationships with tea quality by Shuning Zhang, Shuning Zhang, Naoki Yanagisawa, Mio Asahina, Hiroto Yamashita, Hiroto Yamashita, Hiroto Yamashita, Takashi Ikka, Takashi Ikka, Takashi Ikka, Takashi Ikka

“…The dominant amplicon sequence variants (ASVs) in soils were Proteobacteria (28.12%), Actinobacteriota (25.65%), Firmicutes (9.99%) at phylum level, and Acidothermaceae (7.24%), Solirubrobacteraceae (4.85%), and Acetobacteraceae (4.50%) at family level. …”
Get full text

HIV-1 transcription start sites usage and its impact on unspliced RNA functions in people living with HIV by Saiful Islam, Frank Maldarelli, Olga A. Nikolaitchik, Zetao Cheng, Robert Gorelick, Maria A. Nikolaitchik, Vinay K. Pathak, Wei-Shau Hu

“…In this report, we demonstrate that in people living with HIV, the virus uses multiple transcription start sites to generate several unspliced RNA species that are 99% identical in sequence but differ functionally. One of the RNA species, 1G RNA, is selected over other HIV-1 unspliced RNAs to be packaged into viral particles. …”
Get full text

Clinical Symptoms and Types of Samples Are Critical Factors for the Molecular Diagnosis of Symptomatic COVID-19 Patients: A Systematic Literature Review by Milad Zandi, Abbas Farahani, Armin Zakeri, Sara Akhavan Rezayat, Ramin Mohammadi, Umashankar Das, Jonathan R. Dimmock, Shervin Afzali, Mohammadvala Ashtar Nakhaei, Alireza Doroudi, Yousef Erfani, Saber Soltani

“…Also, different conserved SARS-CoV-2 gene sequences could be targeted for qRT-PCR detection. …”
Get full text

Dissemination of IncQ1 Plasmids Harboring NTE_KPC-IId in a Brazilian Hospital by Camila Maria dos Santos Boralli, Julian Andres Paganini, Rodrigo Silva Meneses, Camila Pacheco Silveira Martins da Mata, Edna Marilea Meireles Leite, Anita C. Schürch, Fernanda L. Paganelli, Rob J. L. Willems, Ilana L. B. C. Camargo

“…Different clones were selected using PFGE, and their genomes were sequenced using Illumina and Oxford Nanopore methods. …”
Get full text

Influence of Different Catalytic Metals on the Formation of PCDD/Fs during Co-combustion of Sewage Sludge and Coal by Xiaoqing Lin, Tieying Mao, Yunfeng Ma, Xiangbo Zou, Lijun Liu, Wenhua Yin, Mumin Rao, Ji Ye, Chuangting Chen, Hong Yu, Xiaodong Li, Jianhua Yan

“…That is, the promotion effect of different metal additives on PCDD/F formation followed a sequence of CuCl2 (292×) > FeCl3 (132×) > ZnCl2 (105×) ≫ CuO (2.5×) > Fe2O3 (1.5×) > ZnO (1.1×), wherein the metal chlorides showed 2 orders of magnitude higher promotion than that of metal oxides. …”
Get full text

Geographically widespread and novel hemotropic mycoplasmas and bartonellae in Mexican free-tailed bats and sympatric North American bat species by Daniel J. Becker, Kristin E. Dyer, Lauren R. Lock, Beckett L. Olbrys, Shawn A. Pladas, Anushka A. Sukhadia, Bret Demory, Juliana Maria Nunes Batista, Micaela Pineda, Nancy B. Simmons, Amanda M. Adams, Winifred F. Frick, M. Teague O'Mara, Dmitriy V. Volokhov

“…We also detected novel hemoplasmas in sympatric cave myotis (Myotis velifer) and pallid bats (Antrozous pallidus), with sequences in the latter 96.5% related to Candidatus Mycoplasma haematohominis. …”
Get full text

Comparative analysis of chloroplast genomes reveals molecular evolution and phylogenetic relationships within the Papilionoideae of Fabaceae by Qian Qin, Yanjing Dong, Jialong Chen, Bo Wang, Yuxin Peng, XinPeng Zhang, Xiaoyun Wang, Jinxiang Zeng, Guoyue Zhong, Shouwen Zhang, Xiaolang Du

“…Methods Complete cpDNAs of 18 Pap. species were sequenced using the Illumina Novaseq 6000 platform, followed by assembly and annotation. …”
Get full text

YOLOX-SwinT algorithm improves the accuracy of AO/OTA classification of intertrochanteric fractures by orthopedic trauma surgeons by Xue-Si Liu, Rui Nie, Ao-Wen Duan, Li Yang, Xiang Li, Le-Tian Zhang, Guang-Kuo Guo, Qing-Shan Guo, Dong-Chu Zhao, Yang Li, He-Hua Zhang

“…Subsequently, we recruited 5 senior orthopedic trauma surgeons (SOTS) and 5 junior orthopedic trauma surgeons (JOTS) to classify the 85 original images in the test set, as well as the images with the prediction results of the network model in sequence. Statistical analysis was performed using the SPSS 20.0 (IBM Corp., Armonk, NY, USA) to compare the differences among the SOTS, JOTS, SOTS + AI, JOTS + AI, SOTS + JOTS, and SOTS + JOTS + AI groups. …”
Get full text

Diagnostics and treatment of Helicobacter pylori infection in adults: Clinical guidelines of the Russian gastroenterological association by V. T. Ivashkin, I. V. Mayev, T. L. Lapina, A. A. Sheptulin, A. S. Trukhmanov, Ye. K. Baranskaya, R. A. Abdulkhakov, O. P. Alekseyeva, S. A. Alekseyenko, N. N. Dekhnich, R. S. Kozlov, I. L. Klyaritskaya, N. V. Korochanskaya, S. A. Kurilovich, M. F. Osipenko, V. I. Simanenkov, A. V. Tkachev, I. B. Khlynov, V. V. Tsukanov

“…To present indications for antihelicobacter therapy, methods and sequence of diagnostics and eradication treatment of Helicobacter pylori (H. pylori) infection to general practitioners. …”
Get full text

Clinical, pathological, and genotypic analysis of infectious bronchitis virus in broiler chickens in the Abu Dhabi Emirate, United Arab Emirates by Hassan Zackaria Ali Ishag, Abdelnasir Mohammed Adam Terab, Ebrahim Mohamad Abdalsalam Osman, El Tigani Ahmed El Tigani-Asil, El Tigani Ahmed El Tigani-Asil, Mohammed Saleh Albreiki, Oum Keltoum Bensalah, Asma Abdi Mohamed Shah, Abdelmalik Ibrahim Khalafalla

“…The virus was detected by RT-qPCR assay, genotyping was determined by phylogenetic analysis of the Spike (S)-1 gene, and differentiation between field and vaccine strains was determined by comparing their sequences.ResultsThe age of the affected flocks varies from 2 to 5 weeks. …”
Get full text

Identification of patient demographic, clinical, and SARS-CoV-2 genomic factors associated with severe COVID-19 using supervised machine learning: a retrospective multicenter study by Kuganya Nirmalarajah, Patryk Aftanas, Shiva Barati, Emily Chien, Gloria Crowl, Amna Faheem, Lubna Farooqi, Alainna J. Jamal, Saman Khan, Jonathon D. Kotwa, Angel X. Li, Mohammad Mozafarihashjin, Jalees A. Nasir, Altynay Shigayeva, Winfield Yim, Lily Yip, Xi Zoe Zhong, Kevin Katz, Robert Kozak, Andrew G. McArthur, Nick Daneman, Finlay Maguire, Allison J. McGeer, Venkata R. Duvvuri, Samira Mubareka

“…In models built on the amino acid sequences of functional regions including spike, nucleocapsid, ORF3a, and ORF8 proteins, variants preceding the emergence of variants of concern (VOCs) or pre-VOC variants, were associated with hospitalization. …”
Get full text

Continuous theta-burst stimulation demonstrates language-network-specific causal effects on syntactic processing by Chenyang Gao, Junjie Wu, Yao Cheng, Yuming Ke, Xingfang Qu, Mingchuan Yang, Gesa Hartwigsen, Luyao Chen

“…In each session, participants were required to label the syntactic categories of jabberwocky sequences retaining real Chinese function words (e.g., “ム了ウ” is labeled as a verb phrase (VP): “[VP [V了]N]”, similar to “ziff-ed a wug”, where “ziff” and “wug” are nonsense pseudowords, and the whole phrase is a VP). …”
Get full text

Rehabilitation using virtual gaming for Hospital and hOMe-Based training for the Upper limb in acute and subacute Stroke (RHOMBUS II): results of a feasibility randomised controlle... by Cherry Kilbride, Tom Butcher, Meriel Norris, Nana Anokye, Alyson Warland, Karen Baker, Dimitrios A Athanasiou, Guillem Singla-Buxarrais, Jennifer Ryan, Francesca Gowing, Elmar Kal, Carole Pound, Victoria Stewart, Basaam Aweid, Arul Samiyappan

“…Impairment, activity and participation outcomes were also collected at baseline and 7 weeks to assess their suitability for use in a definitive trial.Randomisation Computer-generated, allocation sequence concealed by opaque, sealed envelopes.Blinding Participants and assessors were not blinded; statistician blinded for data processing and analysis.Results 192 stroke survivors were screened for eligibility, and 24 were recruited and randomised. …”
Get full text

Diversity and Complexity of CTXΦ and Pre-CTXΦ Families in <em>Vibrio cholerae</em> from Seventh Pandemic by Xiaorui Li, Yu Han, Wenxuan Zhao, Yue Xiao, Siyu Huang, Zhenpeng Li, Fenxia Fan, Weili Liang, Biao Kan

“…Different members of the pre-CTXΦ and CTXΦ families are distinguished by the sequence of the transcriptional repressor-coding gene <i>rstR</i>. …”
Get full text

Diagnosis of tuberculosis in buffaloes in Argentina: intradermoreaction, compatible lesions and bacteriological culture by Emilia Irina Martínez, Fabiana Cipolini Galarza, Nolly María Monzón, Ana Gabriela Espasandin, José Luis Konrad, Elvira Falzoni, Soledad Barandiaran, Jimena Marfil, Marcela Martínez Vivot, Diana Elina Martínez

“…In molecular tests, the hsp65 gene was amplified to determine the genus Mycobacteria, as well as the insertion sequence IS6110, the most widely used marker for the detection of M. tuberculosis complex. …”
Get full text

Comparative Genomics Reveals Evidence of the Genome Reduction and Metabolic Potentials of <i>Aliineobacillus hadale</i> Isolated from Challenger Deep Sediment of the Mariana Trench by Shaofeng Yang, Jie Liu, Yang Liu, Weichao Wu, Jiahua Wang, Yuli Wei

“…Strain Lsc_1132^T contains heterogenous 16S rRNA genes, exhibiting the highest sequence similarities to the type strains of <i>Neobacillus drentensis</i> LMG 21831^T, <i>Neobacillus dielmonensis</i>, <i>Neobacillus drentensis</i> NBRC 102427^T, <i>Neobacillus rhizosphaerae</i>, and <i>Neobacillus soli</i> NBRC 102451^T, with a range of 98.60–99.10% identity. …”
Get full text

Deep learning-based synthetic CT for dosimetric monitoring of combined conventional radiotherapy and lattice boost in large lung tumors by Hongwei Zeng, Xiangyu E, Minghe Lv, Su Zeng, Yue Feng, Wenhao Shen, Wenhui Guan, Yang Zhang, Ruping Zhao, Jingping Yu

“…In LRT plan, high-dose regions for the GTV and D95% exhibited displacements greater than 5 mm from the tumor boundary in 19 randomly scanned sCT sequences under free breathing conditions. Validation of dose delivery using TLD phantom measurements showed that more than half of the dose points in the sCT based LRT plan had deviations below 2%, with a maximum deviation of 5.89%. …”
Get full text

Fluid Dynamics in a Thrust Fault Inferred from Petrology and Geochemistry of Calcite Veins: An Example from the Southern Pyrenees by Daniel Muñoz-López, David Cruset, Irene Cantarero, Antonio Benedicto, Cédric M. John, Anna Travé

“…The selected thrust displaces the steeply dipping southern limb of the Sant Corneli-Bóixols anticline, juxtaposing a Cenomanian-Turonian carbonate unit against a Coniacian carbonate sequence. Successive deformation events are recorded by distinct fracture systems and related calcite veins, highlighting (i) an episodic evolution of the thrust zone, resulting from an upward migration of the fault tip (process zone development) before growth of the fault (thrust slip plane propagation), and (ii) compartmentalization of the thrust fault zone, leading to different structural and fluid flow histories in the footwall and hanging wall. …”
Get full text