scholarly journals Systemic infection of SARS-CoV-2 in free ranging Leopard (Panthera pardus fusca) in India

2022 ◽  
Author(s):  
Sonalika Mahajan ◽  
Karikalan Mathesh ◽  
Vishal Chander ◽  
Abhijit M Pawde ◽  
G Saikumar ◽  
...  
Keyword(s):  
Systemic Infection ◽  
Virus Evolution ◽  
Whole Genome Sequence ◽  
Carrier Status ◽  
Panthera Pardus ◽  
Infection Level ◽  
Wildlife Species ◽  
Evolution And Development ◽  
Free Ranging

We report patho-morphological and virological characterization of SARS-CoV-2 in naturally infected, free ranging Indian Leopard (Panthera pardus fusca). Whole genome sequence analysis confirmed infection of Delta variant of SARS-CoV-2, possibly spill over from humans, but the case was detected when infection level had dropped significantly in human population. This report underlines the need for intensive screening of wild animals for keeping track of the virus evolution and development of carrier status of SARS-CoV-2 among wildlife species.

Whole-Genome Sequence Characterization of Primary Auxin-Responsive Aux/IAA Gene Family in Sorghum (Sorghum bicolor L.)

2010 ◽  
Vol 36 (4) ◽  
pp. 688-694
Author(s):  
Yi-Jun WANG ◽  
Yan-Ping LÜ ◽  
Qin XIE ◽  
De-Xiang DENG ◽  
Yun-Long BIAN
Keyword(s):  
Sorghum Bicolor ◽  
Gene Family ◽  
Genome Sequence ◽  
Whole Genome Sequence ◽  
Whole Genome ◽  
Sequence Characterization ◽  
I Gene

scholarly journals SureSelect targeted enrichment, a new cost effective method for the whole genome sequencing of Candidatus Liberibacter asiaticus

2019 ◽  
Vol 9 (1) ◽  
Author(s):  
Weili Cai ◽  
Schyler Nunziata ◽  
John Rascoe ◽  
Michael J. Stulberg
Keyword(s):  
Whole Genome Sequencing ◽  
Molecular Characterization ◽  
Genome Sequencing ◽  
Whole Genome Sequence ◽  
Whole Genome ◽  
Genome Coverage ◽  
Metagenomic Sample ◽  
Liberibacter Asiaticus

AbstractHuanglongbing (HLB) is a worldwide deadly citrus disease caused by the phloem-limited bacteria ‘Candidatus Liberibacter asiaticus’ (CLas) vectored by Asian citrus psyllids. In order to effectively manage this disease, it is crucial to understand the relationship among the bacterial isolates from different geographical locations. Whole genome sequencing approaches will provide more precise molecular characterization of the diversity among populations. Due to the lack of in vitro culture, obtaining the whole genome sequence of CLas is still a challenge, especially for medium to low titer samples. Hundreds of millions of sequencing reads are needed to get good coverage of CLas from an HLB positive citrus sample. In order to overcome this limitation, we present here a new method, Agilent SureSelect XT HS target enrichment, which can specifically enrich CLas from a metagenomic sample while greatly reducing cost and increasing whole genome coverage of the pathogen. In this study, the CLas genome was successfully sequenced with 99.3% genome coverage and over 72X sequencing coverage from low titer tissue samples (equivalent to 28.52 Cq using Li 16 S qPCR). More importantly, this method also effectively captures regions of diversity in the CLas genome, which provides precise molecular characterization of different strains.

Characterization of major histocompatibility complex class I, and class II DRB loci of captive and wild Indian leopards (Panthera pardus fusca)

Genetica ◽  
2017 ◽  
Vol 145 (6) ◽  
pp. 541-558
Author(s):  
Drashti R. Parmar ◽  
Siuli Mitra ◽  
Snehalata Bhadouriya ◽  
Tirupathi Rao ◽  
Vaishnavi Kunteepuram ◽  
...  
Keyword(s):  
Major Histocompatibility Complex ◽  
Major Histocompatibility Complex Class ◽  
Class Ii ◽  
Class I ◽  
Panthera Pardus ◽  
Complex Class ◽  
Major Histocompatibility ◽  
Histocompatibility Complex

scholarly journals A Statistical Characterization of Consistent Patterns of Human Immunodeficiency Virus Evolution Within Infected Patients

2004 ◽  
Vol 22 (3) ◽  
pp. 456-468 ◽  
Author(s):  
Scott Williamson ◽  
Steven M. Perry ◽  
Carlos D. Bustamante ◽  
Maria E. Orive ◽  
Miles N. Stearns ◽  
...  
Keyword(s):  
Human Immunodeficiency Virus ◽  
Virus Evolution ◽  
Statistical Characterization ◽  
Immunodeficiency Virus

scholarly journals Characterization of the Whole-Genome Sequence of an H3N6 Avian Influenza Virus, Isolated from a Domestic Duck in Guangxi, Southern China

2015 ◽  
Vol 3 (5) ◽  
Author(s):  
Tingting Liu ◽  
Zhixun Xie ◽  
Sisi Luo ◽  
Liji Xie ◽  
Xianwen Deng ◽  
...  
Keyword(s):  
Influenza Virus ◽  
Avian Influenza ◽  
Avian Influenza Virus ◽  
Southern China ◽  
Scientific Evidence ◽  
Whole Genome Sequence ◽  
Domestic Duck ◽  
Guangxi Province ◽  
Eurasian Lineage

A field strain of H3N6 avian influenza virus (AIV), A/duck/Guangxi/175D12/2014(H3N6), was isolated from a native duck in Guangxi Province, southern China, in 2014. All of the eight AIV gene segments were sequenced, and sequence results revealed that there were 11 amino acid deletions at the NA stalk region. The NA, PB2, and NP genes showed highest homology to H5N6 AIV, and the PA gene showed highest homology to H7N2 AIV. Phylogenetic analysis indicated that the eight AIV gene segments belonged to the Eurasian lineage. These findings provide scientific evidence of possible or potential mutations of H3N6 AIV circulating in waterfowl in southern China.

scholarly journals Pathological and parasitological characterization of Prosthenorchis elegans in a free-ranging marmoset Callithrix geofroyi from the Brazilian Atlantic Forest

2017 ◽  
Vol 37 (12) ◽  
pp. 1514-1518
Author(s):  
Ayisa R. de Oliveira ◽  
Emy Hiura ◽  
Flaviana L. Guião-Leite ◽  
Mayra C. Flecher ◽  
Fábio R. Braga ◽  
...  
Keyword(s):  
Atlantic Forest ◽  
Intestinal Parasite ◽  
Brazilian Atlantic Forest ◽  
Primate Conservation ◽  
Neotropical Primates ◽  
Pathology Laboratory ◽  
Intestinal Lesions ◽  
Veterinary Pathology ◽  
Free Ranging

ABSTRACT: Prosthenorchis elegans is an acanthocephalan intestinal parasite reported in neotropical primates. Despite parasitism by P. elegans having already been described in wild marmosets in the Brazilian Atlantic Forest, there are no reports of this infection in wild Geoffroy’s marmoset (Callithrix geofroyi). The aim of this study is to report one case of P. elegans parasitism in a free-ranging C. geoffroyi from Brazilian Atlantic Forest in Espírito Santo state, and characterize the pathological and parasitological findings of this infection. One Geoffroy’s marmoset necropsied at the Vila Velha University’s Veterinary Pathology Laboratory presented intense chronic transmural ulcerative enteritis associated with twenty cylindrical helminths present in the jejunum and ileum. We can conclude that parasitism by P. elegans occurs in free-ranging groups of Geoffroy’s marmosets. Its infection produced severe intestinal lesions even in free-ranging marmoset and therefore is a threat to this animal’s survival in wildlife and can have some impact on primate conservation in the Brazilian Atlantic Forest.

scholarly journals Whole-Genome Sequence of Multidrug-ResistantPseudomonas aeruginosaStrain BAMCPA07-48, Isolated from a Combat Injury Wound

2016 ◽  
Vol 4 (4) ◽  
Author(s):  
Fatemeh Sanjar ◽  
S. L. Rajasekhar Karna ◽  
Tsute Chen ◽  
Ping Chen ◽  
Johnathan J. Abercrombie ◽  
...  
Keyword(s):  
Pseudomonas Aeruginosa ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Whole Genome Sequence ◽  
Whole Genome ◽  
Valuable Resource ◽  
Combat Injury ◽  
Pathogen Surveillance

We report here the complete genome sequence ofPseudomonas aeruginosastrain BAMCPA07-48, isolated from a combat injury wound. The closed genome sequence of this isolate is a valuable resource for pathogenome characterization ofP. aeruginosaassociated with wounds, which will aid in the development of a higher-resolution phylogenomic framework for molecular-guided pathogen-surveillance.

Prevalence and Molecular Characterization of Novel Pathogenic Strains of Macrococcus Caseolyticus Isolated From External Wounds of Donkeys in Khartoum State –Sudan

2021 ◽  
Author(s):  
Dania Ali ◽  
Mushal Allam ◽  
Hisham Altayb ◽  
Dalia Mursi ◽  
M. A Abdalla ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
Molecular Characterization ◽  
Genome Sequence ◽  
Whole Genome Sequence ◽  
Whole Genome ◽  
Genome Sequence Analysis ◽  
Resistant Genes ◽  
Different Seasons ◽  
Novel Alleles

Abstract A pathogenic strains of Macrococcus caseolyticus was isolated from wounds infection during investigation on donkeys in Khartoum State. Samples were collected from external wounds (head, abdomin, back and leg), during different seasons of the year. One isolate (124B) was identified using whole-genome sequence analysis. RAST software identified thirty-one virulent genes of disease and defense including methicillin resistant genes, TatR family and ANT(4’)-Ib. Plasmid rep22 wasidentified by PlasmidFindet-2.0 Server and a CRISPR. MILST-2.0 predicted many novel alleles. NCBI notated the genome as a novel strain of M.caseolyticus strain (DaniaSudan). The MLST-tree-V1 revealed that DaniaSudan and KM0211a strains were interrelated. Strain Daniasudan was resistant to ciprofloxacin, ceftazidime, erythromycin, oxacillin, clindamycin and kanamycin. The prevalence of the strain was 4.73%, with significant differences between collection seasons and locations of wounds. Mice modling showen bacteremia and many clinical (swelling, allergy, wounds and loss of hair). Enlarged, hyperemia, adhesions and abscesses were observed in many organs. This represents the first report of pathogenic strains of M.caseolyticus worldwide.

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