Faculty Opinions recommendation of Dissecting the genomic complexity underlying medulloblastoma.

Abstract To better understand the genetic diversity, host associations and evolution of coronaviruses (CoVs) in China we analyzed a total of 696 rodents encompassing 16 different species sampled from Zhejiang and Yunnan provinces. Based on reverse transcriptase PCR-based CoV screening of fecal samples and subsequent sequence analysis of the RNA-dependent RNA polymerase gene, we identified CoVs in diverse rodent species, comprising Apodemus agrarius, Apodemus chevrieri, Apodemus latronum, Bandicota indica, Eothenomys cachinus, Eothenomys miletus, Rattus andamanensis, Rattus norvegicus, and Rattus tanezumi. CoVs were particularly commonplace in A. chevrieri, with a detection rate of 12.44 per cent (24/193). Genetic and phylogenetic analysis revealed the presence of three groups of CoVs carried by a range of rodents that were closely related to the Lucheng Rn rat CoV (LRNV), China Rattus CoV HKU24 (ChRCoV_HKU24), and Longquan Rl rat CoV (LRLV) identified previously. One newly identified A. chevrieri-associated virus closely related to LRNV lacked an NS2 gene. This virus had a similar genetic organization to AcCoV-JC34, recently discovered in the same rodent species in Yunnan, suggesting that it represents a new viral subtype. Notably, additional variants of LRNV were identified that contained putative non-structural (NS)2b genes located downstream of the NS2 gene that were likely derived from the host genome. Recombination events were also identified in the open reading frame (ORF) 1a gene of Lijiang-71. In sum, these data reveal the substantial genetic diversity and genomic complexity of rodent-borne CoVs, and extend our knowledge of these major wildlife virus reservoirs.

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4-Jahres-Update der Murano-Studie bestätigt den Stellenwert von Venetoclax in der 2. Therapielinie der CLL

Karger Kompass Onkologie ◽

10.1159/000517067 ◽

2021 ◽

pp. 77-79

Author(s):

Maximilian Schmutz ◽

Sebastian Sommer

Keyword(s):

Response Rate ◽

Residual Disease ◽

Gene Mutations ◽

Progression Free Survival ◽

Lymphocytic Leukemia ◽

Fixed Duration ◽

Genetic Characteristics ◽

Genomic Complexity ◽

End Of Treatment

Purpose: In previous analyses of the MURANO study, fixed-duration venetoclax plus rituximab (VenR) resulted in improved progression-free survival (PFS) compared with bendamustine plus rituximab (BR) in patients with relapsed or refractory chronic lymphocytic leukemia (CLL). At the 4-year follow-up, we report long-term outcomes, response to subsequent therapies, and the predictive value of molecular and genetic characteristics. Patients and methods: Patients with CLL were randomly assigned to 2 years of venetoclax (VenR for the first six cycles) or six cycles of BR. PFS, overall survival (OS), peripheral-blood minimal residual disease (MRD) status, genomic complexity (GC), and gene mutations were assessed. Results: Of 389 patients, 194 were assigned to VenR and 195 to BR. Four-year PFS and OS rates were higher with VenR than BR, at 57.3% and 4.6% (hazard ratio [HR], 0.19; 95% CI, 0.14 to 0.25), and 85.3% and 66.8% (HR, 0.41; 95% CI, 0.26 to 0.65), respectively. Undetectable MRD (uMRD) at end of combination therapy (EOCT) was associated with superior PFS compared with low MRD positivity (HR, 0.50) and high MRD positivity (HR, 0.15). Patients in the VenR arm who received ibrutinib as their first therapy after progression (n = 12) had a reported response rate of 100% (10 of 10 evaluable patients); patients subsequently treated with a venetoclax-based regimen (n = 14) had a reported response rate of 55% (six of 11 evaluable patients). With VenR, the uMRD rate at end of treatment (EOT) was lower in patients with GC than in those without GC (P = 0.042); higher GC was associated with shorter PFS. Higher MRD positivity rates were seen with BIRC3 and BRAF mutations at EOCT and with TP53, NOTCH1, XPO1, and BRAF mutations at EOT. Conclusion: Efficacy benefits with fixed-duration VenR are sustained and particularly durable in patients who achieve uMRD. Salvage therapy with ibrutinib after VenR achieved high response rates. Genetic mutations and GC affected MRD rates and PFS. Trial registration: ClinicalTrials.gov NCT02005471.

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Cross-platform assessment of genomic imbalance confirms the clinical relevance of genomic complexity and reveals loci with potential pathogenic roles in diffuse large B-cell lymphoma

Leukemia & Lymphoma ◽

10.3109/10428194.2015.1080364 ◽

2015 ◽

Vol 57 (4) ◽

pp. 899-908 ◽

Cited By ~ 3

Author(s):

Lizalynn M. Dias ◽

Venkata Thodima ◽

Julia Friedman ◽

Charles Ma ◽

Asha Guttapalli ◽

...

Keyword(s):

B Cell ◽

Clinical Relevance ◽

Cell Lymphoma ◽

B Cell Lymphoma ◽

Genomic Imbalance ◽

Genomic Complexity ◽

Large B Cell Lymphoma ◽

Cross Platform ◽

Large B Cell

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Tunicates: Models for Chordate Evolution and Development at Low Genomic Complexity

Comparative Genomics ◽

10.1007/978-1-4615-4657-3_3 ◽

2000 ◽

pp. 43-69

Author(s):

William R. Jeffery

Keyword(s):

Genomic Complexity ◽

Evolution And Development ◽

Chordate Evolution

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Genomic profiling of dedifferentiated liposarcoma compared to matched well-differentiated liposarcoma reveals higher genomic complexity and a common origin

Molecular Case Studies ◽

10.1101/mcs.a002386 ◽

2018 ◽

Vol 4 (2) ◽

pp. a002386 ◽

Cited By ~ 14

Author(s):

Hannah C. Beird ◽

Chia-Chin Wu ◽

Davis R. Ingram ◽

Wei-Lien Wang ◽

Asrar Alimohamed ◽

...

Keyword(s):

Common Origin ◽

Dedifferentiated Liposarcoma ◽

Genomic Profiling ◽

Genomic Complexity ◽

Well Differentiated

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The Yeast Genus Trichosporon spec. LS3; Molecular characterization of genomic complexity

Zentralblatt für Mikrobiologie ◽

10.1016/s0232-4393(11)80001-6 ◽

1990 ◽

Vol 145 (1) ◽

pp. 3-12 ◽

Cited By ~ 19

Author(s):

U. Gienow ◽

G. Kunze ◽

F. Schauer ◽

R. Bode ◽

J. Hofemeister

Keyword(s):

Molecular Characterization ◽

Yeast Genus ◽

Genomic Complexity

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Genomic characterisation of multiple myeloma: study of a Portuguese cohort

Journal of Clinical Pathology ◽

10.1136/jclinpath-2020-207204 ◽

2021 ◽

pp. jclinpath-2020-207204

Author(s):

Alexandra Couto Oliveira ◽

Ilda Patrícia Ribeiro ◽

Luís Miguel Pires ◽

Ana Cristina Gonçalves ◽

Artur Paiva ◽

...

Keyword(s):

Multiple Myeloma ◽

Clinical Practice ◽

Prognostic Value ◽

Clinical Presentation ◽

Comparative Genomic Hybridisation ◽

Comparative Genomic ◽

Genomic Alterations ◽

Genomic Complexity ◽

Genome Wide ◽

Trisomy 9

Multiple myeloma (MM) genomic complexity reflects in the variable patients’ clinical presentation. Genome-wide studies seem to be a reasonable alternative to identify critical genomic lesions. In the current study, we have performed the genomic characterisation of a Portuguese cohort of patients with MM by array comparative genomic hybridisation. Overall, the most frequently detected alterations were 13q deletions, gains of 1q, 19p, 15q, 5p and 7p and trisomy 9. Even though some identified genomic alterations were previously associated with a prognostic value, other abnormalities remain with unknown, but putative significance for patients’ clinical practice. These genomic alterations should be further assessed as possible biomarkers.

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Discovery and Further Studies on Giant Viruses at the IHU Mediterranee Infection That Modified the Perception of the Virosphere

Viruses ◽

10.3390/v11040312 ◽

2019 ◽

Vol 11 (4) ◽

pp. 312 ◽

Cited By ~ 8

Author(s):

Clara Rolland ◽

Julien Andreani ◽

Amina Louazani ◽

Sarah Aherfi ◽

Rania Francis ◽

...

Keyword(s):

University Hospital ◽

Defense System ◽

Genomic Complexity ◽

Number Of Genes ◽

History Of ◽

Giant Viruses ◽

The University ◽

Acanthamoeba Polyphaga Mimivirus ◽

Active Contribution

The history of giant viruses began in 2003 with the identification of Acanthamoeba polyphaga mimivirus. Since then, giant viruses of amoeba enlightened an unknown part of the viral world, and every discovery and characterization of a new giant virus modifies our perception of the virosphere. This notably includes their exceptional virion sizes from 200 nm to 2 µm and their genomic complexity with length, number of genes, and functions such as translational components never seen before. Even more surprising, Mimivirus possesses a unique mobilome composed of virophages, transpovirons, and a defense system against virophages named Mimivirus virophage resistance element (MIMIVIRE). From the discovery and isolation of new giant viruses to their possible roles in humans, this review shows the active contribution of the University Hospital Institute (IHU) Mediterranee Infection to the growing knowledge of the giant viruses’ field.

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