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Background And Objectives: Given the prognostic relevance that the identification of mutated and germline subgroups of chronic lymphocytic leukemia (CLL) has recently acquired we set out to analyze in depth individual VH gene usage rearrangements in patients with mutated and germline CLL.
Design And Methods: Using sequence analysis of FR1/JH polymerase chain reaction products, the VH immunoglobulin gene configuration was analyzed in 159 rearranged IgH alleles from 154 CLL patients. Having previously identified a spatial relationship between VH gene usage and JH proximity in patients with acute lymphocytic leukemia (ALL), we performed linear and Poisson regression analysis on patients with germline and mutated CLL against VH rearrangements from normal peripheral blood.
Results: Sequence analysis showed that 102 patients (64%) had mutated sequences (>2% DNA base pair changes) while 57 (36%) had germline sequences. The germline CLL group showed JH proximal overusage similar to that reported in ALL patients, while the mutated CLL group showed a pattern comparable to that of the control group (peripheral blood rearranged VH sequences). The CDR3 region was statistically longer in the patients with germline CLL than in those with mutated CLL.
Interpretation And Conclusions: This study highlights differences in the VDJ profile in mutated and germline CLL, consistent with the suggestion that CLL comprises two subgroups. The interpretation of these differences is that the B-cell of CLL, particularly in the germline group, may derive from a pool that has been unable to follow or complete the normal pathway of B-cell differentiation.
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J Appl Stat
February 2025
Department of Mathematics and State Key Laboratory of Novel Software Technology, Nanjing University, Nanjing, People's Republic of China.
We conduct gene mutation rate estimations via developing mutual information and Ewens sampling based convolutional neural network (CNN) and machine learning algorithms. More precisely, we develop a systematic methodology through constructing a CNN. Meanwhile, we develop two machine learning algorithms to study protein production with target gene sequences and protein structures.
View Article and Find Full Text PDFISME Commun
January 2025
Department of Environmental Engineering, National Cheng Kung University, Tainan City 70101, Taiwan.
Global salinization increasingly threatens ecosystem integrity and the regulation of biogeochemical cycles. Our study reveals novel insights into the microbial contributions to the organohalide decomposition in saline environments, demonstrating the unprecedented ability of organohalide-respiring bacteria and to completely dechlorinate trichloroethene to non-toxic ethene under hypersaline conditions (up to 31.3 g/L) in long-term operations.
View Article and Find Full Text PDFAnn Bot
September 2025
The Engineering Research Institute of Agriculture and Forestry, Ludong University, 186 Hongqizhong Road, Yantai, Shandong Province, China 264025.
Background And Aims: Cell wall invertases have multiple roles in plant growth and development, yet their biological functions in seed oil production are still not understood.
Methods: In the present study, the Oryza sativa (rice) cell wall invertase gene OsGIF1 (GRAIN INCOMPLETE FILLING 1) was ectopically expressed in Glycine max (Soybean) and its functions in grain yield and seed nutrition was investigated.
Key Results: We found that constitutive expression of OsGIF1 significantly improved biomass production, grain yield and seed nutrition in transgenic plants.
Mol Biol Rep
September 2025
ICAR-Central Institute of Fisheries Education, Versova, Mumbai, 400061, India.
Background: Labeo fimbriatus (Bloch, 1795) is a medium-sized South Asian minor carp with ecological significance and emerging aquaculture potential, particularly in polyculture systems with Indian major carps. Despite its wide distribution, it remains underrepresented in phylogenetic studies, and limited genomic resources are available. Here, we report the complete mitochondrial genome sequence of L.
View Article and Find Full Text PDFmSystems
September 2025
National Key Laboratory of Veterinary Public Health and Safety, College of Veterinary Medicine, China Agricultural University, Beijing, China.
Livestock-associated methicillin-resistant (LA-MRSA) displays distinct geographical distribution patterns, with ST398 predominating in Europe and ST9 being the dominant lineage in Asia, particularly China. However, the mechanisms underlying these differences remain poorly understood. In this study, we evaluated the cell adhesion capacity, anti-phagocytic properties, and porcine nasal colonization potential of ST9 and ST398 strains isolated from China and Germany.
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