Evolutionary Study of COVID-19 Disease Severity in India for the Genetic Variation and Prevention of Disease Progression

Abstract Introduction:Coronaviruses (CoV) have been responsible for three epidemics in the 21st century, including Severe Acute Respiratory Syndrome (SARS) in 2003. Corona virus is a single strand ribonucleic acid which is genotypically and phenotypically diverse.Method:The phylogenetic tree and Entropy plot are used to show the strain variation with root difference or Boot strip changes among various nucleotide plots with mutational changes (19).Therefore, we would like to explain evolutionary changes in other countries compared to India and in different states of India. To evaluate the strain variation with their mutation and adaptation of the environment with the virus or may be due to several passages occurring over a period of time.Results:For phylogenetic tree analysis, we have selected 8-8 isolates from each state, Assam, Chhattisgarh, Delhi, Gujarat, Haryana, Himachal Pradesh, Karnataka, Kerala, Orissa, Maharashtra, Punjab, Telangana, Uttar Pradesh and West Bengal. Total 74 isolates were selected from given states for making of phylogenetic tree and mutational study. There were many point mutations found.Discussion:According to our study, we found a several point mutation occurred among the sequence submitted in gene bank database that is same as China which has been reported. This study was conducted to systematic analysis on the genomic data of NCBI. This work is also significant in terms of mutational research. Evolutionary changes and approach a new strain through the mutational study done by BioEdit and MEGA 6.0 software. The bioinformatics and the statistical genetic analysis may contribute for study of COVID-19 as other infection and complex disease. This study is used understand the host–pathogen interaction and to contain the COVID-19 outbreak.Conclusion:This study highlighted the evolutionary changes occurred in the COVID-19 disease severity variation in strain for the prevention and mutation. We reported the genetic study of COVID-19 disease with their association in already submitted strain of database for the study of their genetic variation as well as disease progression.

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Serum glial fibrillary acidic protein correlates with multiple sclerosis disease severity

Multiple Sclerosis Journal ◽

10.1177/1352458518819380 ◽

2018 ◽

Vol 26 (2) ◽

pp. 210-219 ◽

Cited By ~ 16

Author(s):

Heidi Högel ◽

Eero Rissanen ◽

Christian Barro ◽

Markus Matilainen ◽

Marjo Nylund ◽

...

Keyword(s):

Multiple Sclerosis ◽

Nervous System ◽

Glial Fibrillary Acidic Protein ◽

Disease Progression ◽

Disease Severity ◽

Single Molecule ◽

Progressive Disease ◽

Disease Duration ◽

Acidic Protein ◽

Csf Levels

Background: Cerebrospinal fluid (CSF) levels of two soluble biomarkers, glial fibrillary acidic protein (GFAP) and neurofilament light chain (NfL), have been shown to associate with multiple sclerosis (MS) disease progression. Now, both biomarkers can be detected reliably in serum, and importantly, their serum levels correlate well with their CSF levels. Objective: To evaluate the usability of serum GFAP measurement as a biomarker of progressive disease and disease severity in MS. Methods: Clinical course, Expanded Disability Status Scale (EDSS), disease duration, patient age and magnetic resonance imaging (MRI) parameters were reviewed in 79 MS patients in this cross-sectional hospital-based study. Serum samples were collected for measurement of GFAP and NfL concentrations using single molecule array (Simoa) assay. A cohort of healthy controls was evaluated for comparison. Results: Higher serum concentrations of both GFAP and NfL were associated with higher EDSS, older age, longer disease duration, progressive disease course and MRI pathology. Conclusion: Earlier studies have demonstrated that GFAP, unlike NfL, is not increased in association with acute focal inflammation-related nervous system damage. Our work suggests that GFAP serum level associates with disease progression in MS and could potentially serve as an easily measurable biomarker of central nervous system (CNS) pathology related to disease progression in MS.

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Phylogenetic Analysis of Kobuvirus and Astrovirus From Korean Wild Boars: 2016-2018

10.21203/rs.3.rs-337498/v1 ◽

2021 ◽

Author(s):

Jihye Shin ◽

SeEun Choe ◽

Bang-Hun Hyun ◽

Dong-Jun An

Keyword(s):

Phylogenetic Analysis ◽

Phylogenetic Tree ◽

Porcine Kobuvirus ◽

Phylogenetic Tree Analysis ◽

Tree Analysis ◽

Wild Boars ◽

Porcine Astrovirus ◽

The One

Abstract The prevalence of porcine kobuvirus (PKoV) and porcine astrovirus (PAstV) in 845 Korean wild boars (KWB) during 2016-2018 were 28.0% and 10.6%, respectively, and co-infection of two viruses showed 5.1%. Phylogenetic tree analysis also revealed that 236 PKoVs from KWB were divided to diverse lineages within Aichivirus C group but the one strain (WKoV16CN-8627) was included the same cluster with bovine kobuvirus (Achivirus B). Eighty-nine PAstVs from KWB was belonged predominantly to lineage PAstV4 and only one strain (WAst17JN-10931) included novel to lineage PAstV2. Two viruses are epidemic more in young (≤ 12 months) than in old pigs (> 12 months).

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Not Only High Number and Specific Comorbidities but Also Age Are Closely Related to Progression and Poor Prognosis in Patients With COVID-19

Frontiers in Medicine ◽

10.3389/fmed.2021.736109 ◽

2022 ◽

Vol 8 ◽

Author(s):

Dafeng Liu ◽

Yongli Zheng ◽

Jun Kang ◽

Dongmei Wang ◽

Lang Bai ◽

...

Keyword(s):

Clinical Trial ◽

Disease Progression ◽

Disease Severity ◽

Poor Prognosis ◽

Chronic Obstructive ◽

Clinical Trial Registry ◽

Alcoholic Fatty Liver ◽

Clinical Type ◽

Conversion Time ◽

Negative Conversion

Background: Some patients with comorbidities and rapid disease progression have a poor prognosis.Aim: We aimed to investigate the characteristics of comorbidities and their relationship with disease progression and outcomes of COVID-19 patients.Methods: A total of 718 COVID-19 patients were divided into five clinical type groups and eight age-interval groups. The characteristics of comorbidities were compared between the different clinical type groups and between the different age-interval groups, and their relationships with disease progression and outcomes of COVID-19 patients were assessed.Results: Approximately 91.23% (655/718) of COVID-19 patients were younger than 60 years old. Approximately 64.76% (465/718) had one or more comorbidities, and common comorbidities included non-alcoholic fatty liver disease (NAFLD), hyperlipidaemia, hypertension, diabetes mellitus (DM), chronic hepatitis B (CHB), hyperuricaemia, and gout. COVID-19 patients with comorbidities were older, especially those with chronic obstructive pulmonary disease (COPD) and cardiovascular disease (CVD). Hypertension, DM, COPD, chronic kidney disease (CKD) and CVD were mainly found in severe COVID-19 patients. According to spearman correlation analysis the number of comorbidities was correlated positively with disease severity, the number of comorbidities and NAFLD were correlated positively with virus negative conversion time, hypertension, CKD and CVD were primarily associated with those who died, and the above-mentioned correlation existed independently of age. Risk factors included age, the number of comorbidities and hyperlipidaemia for disease severity, the number of comorbidities, hyperlipidaemia, NAFLD and COPD for the virus negative conversion time, and the number of comorbidities and CKD for prognosis. Number of comorbidities and age played a predictive role in disease progression and outcomes.Conclusion: Not only high number and specific comorbidities but also age are closely related to progression and poor prognosis in patients with COVID-19. These findings provide a reference for clinicians to focus on not only the number and specific comorbidities but also age in COVID-19 patients to predict disease progression and prognosis.Clinical Trial Registry: Chinese Clinical Trial Register ChiCTR2000034563.

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4-Ethylguaiacol modulates neuroinflammation and Th1/Th17 differentiation to ameliorate disease severity in experimental autoimmune encephalomyelitis

Journal of Neuroinflammation ◽

10.1186/s12974-021-02143-w ◽

2021 ◽

Vol 18 (1) ◽

Author(s):

Wen-Tsan Weng ◽

Ping-Chang Kuo ◽

Dennis A. Brown ◽

Barbara A. Scofield ◽

Destin Furnas ◽

...

Keyword(s):

Autoimmune Disease ◽

Experimental Autoimmune Encephalomyelitis ◽

Immune Responses ◽

Disease Progression ◽

Disease Severity ◽

Autoimmune Encephalomyelitis ◽

Relapsing Remitting ◽

Th17 Differentiation ◽

Experimental Autoimmune

Abstract Background Multiple sclerosis (MS) is a progressive autoimmune disease characterized by the accumulation of pathogenic inflammatory immune cells in the central nervous system (CNS) that subsequently causes focal inflammation, demyelination, axonal injury, and neuronal damage. Experimental autoimmune encephalomyelitis (EAE) is a well-established murine model that mimics the key features of MS. Presently, the dietary consumption of foods rich in phenols has been reported to offer numerous health benefits, including anti-inflammatory activity. One such compound, 4-ethylguaiacol (4-EG), found in various foods, is known to attenuate inflammatory immune responses. However, whether 4-EG exerts anti-inflammatory effects on modulating the CNS inflammatory immune responses remains unknown. Thus, in this study, we assessed the therapeutic effect of 4-EG in EAE using both chronic and relapsing-remitting animal models and investigated the immunomodulatory effects of 4-EG on neuroinflammation and Th1/Th17 differentiation in EAE. Methods Chronic C57BL/6 EAE and relapsing-remitting SJL/J EAE were induced followed by 4-EG treatment. The effects of 4-EG on disease progression, peripheral Th1/Th17 differentiation, CNS Th1/Th17 infiltration, microglia (MG) activation, and blood-brain barrier (BBB) disruption in EAE were evaluated. In addition, the expression of MMP9, MMP3, HO-1, and Nrf2 was assessed in the CNS of C57BL/6 EAE mice. Results Our results showed that 4-EG not only ameliorated disease severity in C57BL/6 chronic EAE but also mitigated disease progression in SJL/J relapsing-remitting EAE. Further investigations of the cellular and molecular mechanisms revealed that 4-EG suppressed MG activation, mitigated BBB disruption, repressed MMP3/MMP9 production, and inhibited Th1 and Th17 infiltration in the CNS of EAE. Furthermore, 4-EG suppressed Th1 and Th17 differentiation in the periphery of EAE and in vitro Th1 and Th17 cultures. Finally, we found 4-EG induced HO-1 expression in the CNS of EAE in vivo as well as in MG, BV2 cells, and macrophages in vitro. Conclusions Our work demonstrates that 4-EG confers protection against autoimmune disease EAE through modulating neuroinflammation and inhibiting Th1 and Th17 differentiation, suggesting 4-EG, a natural compound, could be potentially developed as a therapeutic agent for the treatment of MS/EAE.

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Genome Instability in Multiple Myeloma: Facts and Factors

Cancers ◽

10.3390/cancers13235949 ◽

2021 ◽

Vol 13 (23) ◽

pp. 5949

Author(s):

Anna Y. Aksenova ◽

Anna S. Zhuk ◽

Artem G. Lada ◽

Irina V. Zotova ◽

Elena I. Stepchenkova ◽

...

Keyword(s):

Multiple Myeloma ◽

Complex Disease ◽

Plasma Cells ◽

Genome Instability ◽

Hematologic Malignancy ◽

Point Mutations ◽

Malignant Neoplasm ◽

Chemotherapeutic Agents ◽

Hematopoietic Stem ◽

Social Burden

Multiple myeloma (MM) is a malignant neoplasm of terminally differentiated immunoglobulin-producing B lymphocytes called plasma cells. MM is the second most common hematologic malignancy, and it poses a heavy economic and social burden because it remains incurable and confers a profound disability to patients. Despite current progress in MM treatment, the disease invariably recurs, even after the transplantation of autologous hematopoietic stem cells (ASCT). Biological processes leading to a pathological myeloma clone and the mechanisms of further evolution of the disease are far from complete understanding. Genetically, MM is a complex disease that demonstrates a high level of heterogeneity. Myeloma genomes carry numerous genetic changes, including structural genome variations and chromosomal gains and losses, and these changes occur in combinations with point mutations affecting various cellular pathways, including genome maintenance. MM genome instability in its extreme is manifested in mutation kataegis and complex genomic rearrangements: chromothripsis, templated insertions, and chromoplexy. Chemotherapeutic agents used to treat MM add another level of complexity because many of them exacerbate genome instability. Genome abnormalities are driver events and deciphering their mechanisms will help understand the causes of MM and play a pivotal role in developing new therapies.

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Molecular Analysis of Hepatitis B Virus in Mothers-Children Pairs

Austin Journal of Infectious Diseases ◽

10.26420/austinjinfectdis.2021.1045 ◽

2021 ◽

Vol 8 (1) ◽

Author(s):

Chatzidaki V ◽

◽

Perdikogianni C ◽

Galanakis E ◽

Paraskevis D ◽

...

Keyword(s):

Hepatitis B Virus ◽

Hepatitis B ◽

Phylogenetic Tree ◽

Surface Glycoprotein ◽

Phylogenetic Tree Analysis ◽

Source Of Infection ◽

B Virus ◽

Maximum Likelihood Methods ◽

Infection Source ◽

Relationship Of

ackground: Vertical transmission of Hepatitis B Virus (HBV) is the primary infection source for infants, but little is known on the proportion of children that have acquired HBV from their mothers. Objective: We investigated the relationship of HBV sequencing in HBVpositive children and their mothers and explored the HBV phylogenetic tree. Methods: Serum-extracted HBV-DNA from 38 individuals (13 children paired to nine mothers, 16 unpaired infected children) was amplified by polymerase chain reaction and the target region HBV surface glycoprotein (amino acids 40-171) was directly sequenced. Following editing and alignment of these sequences, phylogenetic tree analysis was performed using the neighbourjoining and maximum-likelihood methods. Results: Analysis was successfully performed in 29 subjects (23 children and six mothers), including six mother-child pairs. All individuals were infected by genotype D. Subgenotype adw3 prevailed (21, 72.4%), followed by ayw2 (4, 13.8%) and ayw3 (4, 13.8%). Among six mother-child pairs, three had identical and three had different subgenotypes. Phylogenetic analysis revealed that HBV sequences from three children did not cluster with their siblings suggesting a different source of infection. Conclusion: Our findings suggest that HBV subgenotypes in infected children may not be identical to their mothers’ and point to non-vertical HBV transmission in childhood.

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Genetic variation inChlamydia trachomatisand their hosts: impact on disease severity and tissue tropism

Future Microbiology ◽

10.2217/fmb.13.80 ◽

2013 ◽

Vol 8 (9) ◽

pp. 1129-1146 ◽

Cited By ~ 39

Author(s):

Hossam Abdelsamed ◽

Jan Peters ◽

Gerald I Byrne

Keyword(s):

Genetic Variation ◽

Disease Severity ◽

Tissue Tropism

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Association between disease progression and depression onset in persons with radiographic knee osteoarthritis

Rheumatology ◽

10.1093/rheumatology/keaa141 ◽

2020 ◽

Vol 59 (11) ◽

pp. 3390-3399

Author(s):

Alan M Rathbun ◽

Michelle D Shardell ◽

Alice S Ryan ◽

Michelle S Yau ◽

Joseph J Gallo ◽

...

Keyword(s):

Disease Progression ◽

Disease Severity ◽

Gait Speed ◽

Joint Space Width ◽

Joint Space ◽

Knee Oa ◽

Increased Risk ◽

Pain Subscale ◽

Space Width

Abstract Objectives Osteoarthritis (OA) disease progression may lead to deteriorating psychosocial function, but it is unclear what aspects of disease severity are related to the onset of depression. This study assessed which components of OA disease progression cumulatively contribute to depression onset in persons with radiographic knee OA. Methods Osteoarthritis Initiative participants (n = 1651) with radiographic disease (Kellgren-Lawrence grade ≥2) in one or both knees and below the screening threshold for probable depression [Center for Epidemiological Studies Depression (CES-D) scale <16] at baseline were included. Disease severity was measured from baseline to the third annual follow-up visit using joint space width, 20-meter gait speed, and the Western Ontario and McMaster Universities Osteoarthritis Index pain subscale, each categorized into quintiles. Depression onset (CES-D ≥ 16) was assessed annually at four follow-up visits. Marginal structural models that account for time-dependent confounding and attrition evaluated the association between each time-varying disease severity measure and depression onset. Results Each disease severity measure exhibited a non-linear relationship concerning the probability of depression onset, with the higher quintiles generally being associated with a larger risk. The highest quintile (relative to the lowest) of joint space width and gait speed were both significantly associated with depression onset. By contrast, none of the higher pain quintiles compared with the lowest were significantly associated with the onset of depression. Conclusion Faster disease progression as measured by either worsening structural severity or decreasing physical performance corresponds to an increased risk of depression among individuals with radiographic knee OA.

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