Phylogenetic analysis of porcine circoviruses 4 in Henan Province of China: a retrospective study from 2011 to 2021

2021 ◽  
Author(s):  
Cheng‐Yao Hou ◽  
Liu‐Hui Zhang ◽  
Yuan‐Hang Zhang ◽  
Jian‐Tao Cui ◽  
Li Zhao ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Retrospective Study ◽  
Henan Province ◽  
Porcine Circoviruses

scholarly journals Hyoscyamus labiatus sp. nov. (Solanaceae: Hyoscyameae) from Henan, China: implications for the delimitation of Hyoscyamus

2021 ◽  
Author(s):  
Yan-Yan Liu ◽  
Qi-Rui Wang ◽  
Zeng-Lu Mi ◽  
Jia-Mei Li
Keyword(s):  
Phylogenetic Analysis ◽  
New Species ◽  
Phylogenetic Analyses ◽  
Henan Province ◽  
Monophyletic Group ◽  
Related Genus ◽  
Chloroplast Markers ◽  
Phylogenetic Studies ◽  
Molecular Phylogenetic ◽  
A New Species

Abstract Background Hyoscyamus, the largest genus in the tribe Hyoscyameae, harbors more than 20 species. Although the monophyly of Hyoscyamus is supported by both morphological and molecular phylogenetic studies, the delimitation of Hyoscyamus has been hotly debated in different classifications. Here, we report a new species of Hyoscyamus (Solanaceae) from Henan Province, China, and discuss the delimitation of Hyoscyamus. Results This species is morphologically similar to the known species of Hyoscyamus and its close related genus Archihyoscyamus, but can be distinguished by corolla 2-lipped, adaxial lip 3-lobed and much longer than abaxial lips, tube slender at base, and stamens 5, inserted on inner side of disk, free, obviously unequal, and exceeding corolla. Phylogenetic analysis based on four chloroplast markers including rbcL, ndhF, trnC-psbM and trnL-trnF, strongly suggested that the new species was sister to a monophyletic group containing all species of Hyoscyamus and Archihyoscyamus previously described. Conclusions Both the morphological observations and molecular phylogenetic analyses support the recognition of Hyoscyamus labiatus as a new species. Our study also showed that Archihyoscyamus should be a synonym of Hyoscyamus. The delimitation of Hyoscyamus is thus revised in our study.

scholarly journals A population-based retrospective study of the spread of COVID-19 from Wuhan to Henan province, China

2020 ◽  
Author(s):  
Fei Li ◽  
Xufei Du ◽  
Xinwei Geng ◽  
Min Zhang ◽  
Yun Zhao ◽  
...  
Keyword(s):  
Retrospective Study ◽  
Age Groups ◽  
Population Based ◽  
Henan Province ◽  
Related Factors ◽  
News Reports ◽  
Epidemic Area ◽  
History Of ◽  
And Control ◽  
Time Information

Abstract The epidemic of COVID-19 has now spread globally and affected over 110 countries. As of Mar 10th, using publicly available data and official news reports in Henan province, we tracked a total of 1272 cases and a retrospective study was conducted to investigate the related factors in COVID-19 spread and control. We confirmed 554 primary patients had travel or residential history of Wuhan in the recent 2 weeks. Secondary cases accounted for 77.9% (141/181) among all the patients aged 61 or older, in whom contacted with unconfirmed returnees from Wuhan was responsible for 27.0% (38/141). The median incubate period is 7 (IQR, 4-10) days by analyzing time information in 469 cases. For 442 patients with discharge dates, the duration from onset to cure is 19 (IQR, 15-23) days. The time from onset to seeking care at a hospital varied in age groups, and differed between primary and secondary cases. Patients visiting different hospitals affected the time from seeking care to cure. Thus, our results showed the spread of COVID-19 and factors associated with outcomes of patients in Henan province, which helps to understand the epidemiological features outside of the epidemic area and control the disease in other regions and countries.

scholarly journals Epidemiological and phylogenetic analysis of rabies virus isolated from humans in Henan province, China

2019 ◽  
Vol 164 (11) ◽  
pp. 2811-2817 ◽  
Author(s):  
Jie Ma ◽  
Sanjing Li ◽  
Yuejie Yang ◽  
Qiong Wang ◽  
Yuqi Huo
Keyword(s):  
Phylogenetic Analysis ◽  
Rabies Virus ◽  
Henan Province

Levels of sparganum infections and phylogenetic analysis of the tapeworm Spirometra erinaceieuropaei sparganum in wild frogs from Henan Province in central China

2014 ◽  
Vol 89 (4) ◽  
pp. 433-438 ◽  
Author(s):  
T. Wei ◽  
X. Zhang ◽  
J. Cui ◽  
L.N. Liu ◽  
P. Jiang ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Nadh Dehydrogenase ◽  
Animal Health ◽  
Henan Province ◽  
Central China ◽  
Phylogenetic Position ◽  
Bufo Gargarizans ◽  
Food Borne ◽  
Rana Nigromaculata ◽  
Health Significance

AbstractSparganosis is a serious food-borne parasitic zoonosis caused by infection with Spirometra spargana. The prevalence of sparganum infection in wild frogs (Rana nigromaculata, R. limmochari, R. temporaria and Bufo gargarizans) was investigated in Henan Province of central China during 2008–2012. Of 3482 caught wild frogs, 565 (16.23%) were found to be infected with plerocercoids (spargana) of the genus Spirometra. Spargana were found in 14.85% (320/2155) of R. nigromaculata, 20.82% (233/1119) of R. limmochari and 10.91% (12/110) of R. temporaria frogs. However, no sparganum was found in B. gargarizans. To investigate the phylogenetic position of collected spargana, three mitochondrial DNA (mtDNA) regions, namely cytochrome c oxidase subunits 1 and 3 (cox1 and cox3), and NADH dehydrogenase subunit 4 (nad4), were amplified, sequenced and analysed. Sequences of cox1, cox3 and pnad4 were 417, 390 and 578 bp in length, respectively. The base composition of cox1, cox3 and pnad4 were generally AT rich with a mean of 63.5%, 68.3% and 67% AT, respectively. Phylogenetic analysis showed that all the sparganum isolates in Henan Province represented Spirometra erinaceieuropaei and were a well-supported clade. These findings demonstrated clearly the usefulness of the three mtDNA sequences for molecular identification and population genetics studies of S. erinaceieuropaei spargana of human and animal health significance.

scholarly journals A retrospective study detects a novel variant of porcine epidemic diarrhea virus in England in archived material from the year 2000

PeerJ ◽  
2016 ◽  
Vol 4 ◽  
pp. e2564 ◽  
Author(s):  
Falko Steinbach ◽  
Akbar Dastjerdi ◽  
Julie Peake ◽  
S. Anna La Rocca ◽  
Frank P. Tobin ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Retrospective Study ◽  
North America ◽  
Porcine Epidemic Diarrhea Virus ◽  
Sequence Data ◽  
Diarrhea Virus ◽  
Novel Variant ◽  
Porcine Epidemic Diarrhea ◽  
Year 2000 ◽  
Previous Existence

Outbreaks of porcine epidemic diarrhea (PED) were first recorded in England in the 1970s and continued to be confirmed until 2002. Retrospective analysis of archived material from one of the last confirmed cases in England in the year 2000 demonstrates the previous existence of a very diverse PED virus strain. Following the outbreaks of PED in North America in 2013, there has been renewed interest in phylogenetic analysis of sequences from PEDV strains worldwide. There is a gap in the available sequence data between the mid 1980s and the mid 2000s. This work is an example of how this gap can be at least partially filled by the examination of archived material.

scholarly journals Phylogenetic analysis of porcine circovirus type 2 (PCV2) between 2015 and 2018 in Henan Province, China

2020 ◽  
Vol 16 (1) ◽  
Author(s):  
Guanmin Zheng ◽  
Qingxia Lu ◽  
Fangyu Wang ◽  
Guangxu Xing ◽  
Hua Feng ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Amino Acid ◽  
Complete Genome ◽  
Porcine Circovirus Type ◽  
Porcine Circovirus Type 2 ◽  
Henan Province ◽  
Porcine Circovirus ◽  
Economic Losses ◽  
Clinical Samples

Abstract Background Porcine circovirus type 2 (PCV2) is the pathogen of porcine circovirus associated diseases (PCVAD) and one of the main pathogens in the global pig industry, which has brought huge economic losses to the pig industry. In recent years, there has been limited research on the prevalence of PCV2 in Henan Province. This study investigated the genotype and evolution of PCV2 in this area. Results We collected 117 clinical samples from different regions of Henan Province from 2015 to 2018. Here, we found that the PCV2 infection rate of PCV2 was 62.4%. Thirty-seven positive clinical samples were selected to amplify the complete genome of PCV2 and were sequenced. Based on the phylogenetic analysis of PCV2 ORF2 and complete genome, it was found that the 37 newly detected strains belonged to PCV2a (3 of 37), PCV2b (21 of 37) and PCV2d (13 of 37), indicating the predominant prevalence of PCV2b and PCV2d strains. In addition, we compared the amino acid sequences and found several amino acid mutation sites among different genotypes. Furthermore, the results of selective pressure analysis showed that there were 5 positive selection sites. Conclusions This study indicated the genetic diversity, molecular epidemiology and evolution of PCV2 genotypes in Henan Province during 2015–2018.

Phylogenetic analysis of type 2 porcine circoviruses identified in wild boar in Slovenia

2004 ◽  
Vol 155 (6) ◽  
pp. 178-180 ◽  
Author(s):  
I. Toplak ◽  
J. Grom ◽  
P. Hostnik ◽  
D. Barlic-Maganja
Keyword(s):  
Phylogenetic Analysis ◽  
Wild Boar ◽  
Porcine Circoviruses

scholarly journals Genomic characterization of Klebsiella quasipneumoniae from clinical specimens - a retrospective study, Singapore

2021 ◽  
Author(s):  
Ka Lip Chew ◽  
Sophie Octavia ◽  
Deborah Lai ◽  
Raymond T.P. Lin ◽  
Jeanette W.P. Teo
Keyword(s):  
Phylogenetic Analysis ◽  
Retrospective Study ◽  
Virulence Genes ◽  
Clinical Specimens ◽  
Genomic Characterization ◽  
Low Prevalence ◽  
Encoding Genes

A total of 1281 specimens from 1024 patients were screened. Phylogenetic analysis classified 44 of these isolates as K. quasipneumoniae subsp. similipneumoniae (44/1281, 3.4%) and the remaining three as K. quasipneumoniae subsp. quasipneumoniae. The most common specimen source was urine (21/47, 44.7%) followed by blood ( 14/47, 29.8%). K. quasipneumoniae isolates were non-clonal. Carbapenemase-encoding genes ( bla NDM , bla OXA-181 ) were detected in only two isolates (2/47, 4.3%). K. quasipneumoniae appears to cause a spectrum of infections similar to K. pneumoniae , although higher susceptibility rates to many commonly tested antimicrobials and low prevalence of virulence genes was demonstrated.

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