Summary of your 'study carrel' ============================== This is a summary of your Distant Reader 'study carrel'. The Distant Reader harvested & cached your content into a collection/corpus. It then applied sets of natural language processing and text mining against the collection. The results of this process was reduced to a database file -- a 'study carrel'. The study carrel can then be queried, thus bringing light specific characteristics for your collection. These characteristics can help you summarize the collection as well as enumerate things you might want to investigate more closely. This report is a terse narrative report, and when processing is complete you will be linked to a more complete narrative report. Eric Lease Morgan Number of items in the collection; 'How big is my corpus?' ---------------------------------------------------------- 40 Average length of all items measured in words; "More or less, how big is each item?" ------------------------------------------------------------------------------------ 2359 Average readability score of all items (0 = difficult; 100 = easy) ------------------------------------------------------------------ 6 Top 50 statistically significant keywords; "What is my collection about?" ------------------------------------------------------------------------- 6 RNA 5 TGEV 5 PEDV 3 bat 2 dna 2 codon 2 LAMP 2 H5N1 2 Fig 1 virus 1 cl6/07 1 cell 1 cattle 1 WHU 1 VP5 1 V29 1 TRK22 1 TMK22 1 South 1 SARS 1 RBCV 1 Pig 1 PUUV 1 PRCV 1 PCR 1 PCA 1 P55 1 Osnabrück 1 NTU156 1 Myotis 1 Mass 1 Korea 1 Indonesia 1 INDEL 1 IBV 1 IBDV 1 HPAI 1 Germany 1 GA98 1 Florida 1 FR/2011 1 FIPV 1 EBCV 1 CoV 1 Chinju99 1 CTV 1 CSFV 1 CPV-2 1 CHK148 1 CDV Top 50 lemmatized nouns; "What is discussed?" --------------------------------------------- 1199 virus 899 sequence 607 gene 597 strain 530 protein 455 % 447 c 429 cell 360 t 340 genome 335 acid 331 g 310 analysis 298 a 290 amino 284 region 270 study 269 codon 241 sample 201 infection 199 site 195 bat 179 primer 178 ° 157 usage 151 group 148 isolate 143 specie 142 structure 141 host 136 coronavirus 135 position 133 number 132 type 131 result 131 antibody 126 dna 125 h 123 difference 120 nucleotide 119 reaction 116 disease 114 mutation 112 influenza 110 change 108 domain 105 chicken 101 rna 101 min 98 replication Top 50 proper nouns; "What are the names of persons or places?" -------------------------------------------------------------- 412 RNA 337 PEDV 252 TGEV 246 PCR 227 Fig 214 RT 191 S 186 M 164 C 140 H5N1 133 T 125 IBV 107 SARS 105 N 100 PUUV 92 ORF 88 LAMP 88 China 85 CDV 84 aa 82 GC 75 Ark 73 USA 72 . 71 GenBank 70 Table 61 CoV 60 al 60 Virus 60 TM 60 CSFV 59 IBDV 59 ELISA 57 SY 57 S2 54 II 53 PRCV 52 S1 51 G 50 et 50 Genes 49 K 47 bp 46 ® 46 CC 45 Korea 45 Indonesia 45 HPAI 45 A 44 D Top 50 personal pronouns nouns; "To whom are things referred?" ------------------------------------------------------------- 269 we 249 it 57 i 52 they 14 them 12 us 5 he 3 you 3 one 2 themselves 1 ourself 1 itself 1 ch/ Top 50 lemmatized verbs; "What do things do?" --------------------------------------------- 4180 be 693 have 549 use 312 show 181 find 171 contain 153 include 153 base 149 isolate 142 detect 140 indicate 117 do 116 compare 110 infect 109 report 109 determine 108 identify 105 suggest 104 observe 103 follow 97 predict 94 result 93 encode 93 describe 85 associate 83 collect 82 accord 77 reveal 76 perform 76 cause 74 bind 73 know 72 obtain 72 analyze 71 locate 70 sequence 63 relate 60 conserve 58 express 57 represent 56 occur 56 examine 56 develop 54 strain 54 involve 54 appear 54 amplify 53 provide 53 clone 52 select Top 50 lemmatized adjectives and adverbs; "How are things described?" --------------------------------------------------------------------- 311 viral 302 not 295 other 202 also 198 different 187 high 183 nucleotide 182 - 174 however 141 porcine 139 human 131 specific 125 more 124 only 121 first 114 genetic 108 respectively 108 positive 108 avian 104 similar 104 further 103 well 102 antigenic 101 phylogenetic 93 structural 91 most 90 highly 87 non 86 previously 83 potential 82 same 82 large 80 low 79 molecular 77 genomic 75 several 74 new 72 such 72 present 72 nt 71 important 70 available 69 then 68 complete 67 single 67 as 66 pathogenic 66 infectious 65 therefore 65 clinical Top 50 lemmatized superlative adjectives; "How are things described to the extreme?" ------------------------------------------------------------------------- 34 most 26 high 12 least 10 good 6 low 6 large 6 Most 5 close 3 small 3 great 2 rich 2 few 2 ClustalW 1 ® 1 short Top 50 lemmatized superlative adverbs; "How do things do to the extreme?" ------------------------------------------------------------------------ 57 most 12 least 1 well 1 lowest 1 clustalw Top 50 Internet domains; "What Webbed places are alluded to in this corpus?" ---------------------------------------------------------------------------- 3 genome.ku.dk 2 primerexplorer.jp 1 www.ncbi 1 www.kazusa.or.jp 1 www.intl-pag.org 1 www.cbs.dtu.dk 1 www.ambion.com 1 web.hku.hk 1 viro08.tiho-hannover 1 tree.bio.ed.ac.uk 1 myhits.isb-sib.ch 1 evolve.zoo.ox.ac.uk 1 creat 1 cbrg.inf.ethz.ch 1 bioweb.pasteur.fr Top 50 URLs; "What is hyperlinked from this corpus?" ---------------------------------------------------- 3 http://genome.ku.dk/resources/war/ 1 http://www.ncbi 1 http://www.kazusa.or.jp/codon/ 1 http://www.intl-pag.org/ 1 http://www.cbs.dtu.dk/ser 1 http://www.ambion.com/ 1 http://web.hku.hk/ 1 http://viro08.tiho-hannover 1 http://tree.bio.ed.ac.uk/software/figtree/ 1 http://primerexplorer.jp/lamp3.0.0/index.html 1 http://primerexplorer.jp/elamp 1 http://myhits.isb-sib.ch 1 http://evolve.zoo.ox.ac.uk/ 1 http://creat 1 http://cbrg.inf.ethz.ch/ 1 http://bioweb.pasteur.fr/ Top 50 email addresses; "Who are you gonna call?" ------------------------------------------------- 1 mjackwoo@arches.uga.edu Top 50 positive assertions; "What sentences are in the shape of noun-verb-noun?" ------------------------------------------------------------------------------- 3 cells were cultured 3 pedv is most 3 sequence was present 3 site is specific 2 a predicted mr 2 cells using short 2 gene is also 2 sample contains abs 2 samples using trizol 2 samples were negative 2 sequences are not 2 sequences were then 2 strain is still 2 strain was not 2 strain was originally 2 virus was then 2 viruses are indeed 2 viruses are not 2 viruses did not 2 viruses had about 1 a base substitution 1 a detecting marker 1 a predicted heptad 1 a predicted immunomodulatory 1 a predicted size 1 a result similar 1 a were okym 1 acids are common 1 acids are uncharged 1 acids were avian 1 acids were highly 1 analysis has also 1 analysis showed independent 1 analysis using clustalw 1 analysis using hopp 1 analysis was not 1 analysis were also 1 analysis were ribosomal 1 bats are carriers 1 bats are less 1 bats are not 1 bats did not 1 bats have low 1 cells are almost 1 cells following serial 1 cells is highly 1 cells showed viral 1 cells using dna 1 cells using glycerol 1 cells using high Top 50 negative assertions; "What sentences are in the shape of noun-verb-no|not-noun?" --------------------------------------------------------------------------------------- 2 cells showed no fluorescence 2 regions showing no variation 1 analysis was not solely 1 cells was not significant 1 genes are not essential 1 pedv shows no haemagglutinating 1 sequences are not available 1 sequences was not random 1 strain was not pathogenic 1 virus had no effect 1 virus was not pathogenic 1 viruses are not particularly 1 viruses are not sufficiently A rudimentary bibliography -------------------------- id = cord-348896-a2mjj5dt author = Abid, Nabil Ben Salem title = Molecular study of porcine transmissible gastroenteritis virus after serial animal passages revealed point mutations in S protein date = 2010-12-28 keywords = PRCV; TGEV; TMK22 summary = doi = 10.1007/s11262-010-0562-8 id = cord-311712-lkvt9slp author = Barrett, John W. title = Optimization of Codon Usage of Poxvirus Genes allows for Improved Transient Expression in Mammalian Cells date = 2006 keywords = Fig; codon summary = doi = 10.1007/s11262-005-0035-7 id = cord-011794-ejoufvvj author = Binder, Florian title = Isolation and characterization of new Puumala orthohantavirus strains from Germany date = 2020-04-23 keywords = Germany; Osnabrück; PUUV; RNA; V29; cell summary = doi = 10.1007/s11262-020-01755-3 id = cord-269340-o9jdt86j author = Callison, Scott Andrew title = Infectious Bronchitis Virus S2 Gene Sequence Variability May Affect S1 Subunit Specific Antibody Binding date = 1999 keywords = Florida summary = The S2 gene of several strains of infectious bronchitis virus (IBV) belonging to the Arkansas, Connecticut, and Florida serotypes was sequenced. Thus, we are interested in examining the S2 gene and its deduced amino acid sequence of IBV strains in an attempt to determine if it plays a role in the binding of S1 subunit speci®c antibodies to the virus. We also selected Connecticut 46 and Florida 18288 for S2 gene sequencing because these strains are known to share 96.6% deduced amino acid identity for their S1 subunits, yet remain serologically distinct (14, 15) . In the alignment, members of the U.S. serotypes Arkansas, Mass, Connecticut, Florida, and foreign S2 Gene Sequence Variability serogroups B and C, fall into the same groupings as observed when deduced amino acid sequence data for the S1 subunit is used for phylogenetic analysis (Fig. 3) . One change in the GAV 92 S2 deduced amino acid sequence ( position 50 E?G) led to a 180 ¯i p in the secondary structure prediction of the S2 subunit. doi = 10.1023/a:1008179208217 id = cord-322475-i29t7ce8 author = Chen, Xi title = Molecular characterization and phylogenetic analysis of porcine epidemic diarrhea virus (PEDV) samples from field cases in Fujian, China date = 2012-07-29 keywords = P55; PEDV summary = doi = 10.1007/s11262-012-0794-x id = cord-259398-s8qsjkj2 author = Chouljenko, Vladimir N. title = Nucleotide and Predicted Amino Acid Sequences of All Genes Encoded by the 3′ Genomic Portion (9.5 kb) of Respiratory Bovine Coronaviruses and Comparisons Among Respiratory and Enteric Coronaviruses date = 1998 keywords = EBCV; RBCV summary = doi = 10.1023/a:1008048916808 id = cord-303834-yqysedne author = Ducatez, Mariette F. title = Full genome sequence of guinea fowl coronavirus associated with fulminating disease date = 2015-02-25 keywords = FR/2011 summary = doi = 10.1007/s11262-015-1183-z id = cord-283168-kl1hoa1x author = Farkas, Tibor title = Molecular detection of novel picornaviruses in chickens and turkeys date = 2011-12-13 keywords = CHK148; RNA; TRK22 summary = doi = 10.1007/s11262-011-0695-4 id = cord-266634-bww62vx8 author = Gopinath, M. title = Evidence for N(7) guanine methyl transferase activity encoded within the modular domain of RNA-dependent RNA polymerase L of a Morbillivirus date = 2015-10-07 keywords = RNA summary = doi = 10.1007/s11262-015-1252-3 id = cord-012091-3bo88tux author = Ibrahim, Madiha Salah title = Host-specific genetic variation of highly pathogenic avian influenza viruses (H5N1) date = 2011-02-17 keywords = H5N1; cl6/07 summary = The complete genome sequences of two isolates A/chicken/Egypt/CL6/07 (CL6/07) and A/duck/Egypt/D2br10/07 (D2br10/07) of highly pathogenic avian influenza virus (HPAI) H5N1 isolated at the beginning of 2007 outbreak in Egypt were determined and compared with all Egyptian HPAI H5N1 sequences available in the GenBank. For 2007 and 2008, the CL6/07 and D2br10/07-specific amino acids were detected in GenBank available sequences but they could not be species-correlated due to the low number of duck reference sequences, except the Lys140 (H5 Table 1 ). In our analysis, comparative genetic characterization of the eight RNA segments of CL6/07 and D2br10/07 together with 2006-2010 GenBank Egyptian reference sequences showed that both viruses had nucleotide as well as amino acid differences that appeared to be specific for each, except for the M gene that was highly conserved. Highly pathogenic avian influenza virus subtype H5N1 in Africa: a comprehensive phylogenetic analysis and molecular characterization of isolates doi = 10.1007/s11262-011-0583-y id = cord-296791-h8ftslps author = Junwei, Ge title = Cloning and sequence analysis of the N gene of porcine epidemic diarrhea virus LJB/03 date = 2006-10-01 keywords = PEDV summary = doi = 10.1007/s11262-005-0059-z id = cord-333914-c150ki1n author = Koba, Ryota title = Identification and characterization of a novel bat polyomavirus in Japan date = 2020-08-20 keywords = bat; dna summary = doi = 10.1007/s11262-020-01789-7 id = cord-287748-co9j3uig author = Kobayashi, Tomoya title = Detection of bat hepatitis E virus RNA in microbats in Japan date = 2018-05-29 keywords = RNA; bat summary = doi = 10.1007/s11262-018-1577-9 id = cord-344558-1jgqofbr author = Kocherhans, Rolf title = Completion of the Porcine Epidemic Diarrhoea Coronavirus (PEDV) Genome Sequence date = 2001 keywords = PEDV; TGEV summary = doi = 10.1023/a:1011831902219 id = cord-328518-umvk59dc author = Lee, Dana N. title = Two novel adenoviruses found in Cave Myotis bats (Myotis velifer) in Oklahoma date = 2019-12-03 keywords = Myotis; dna summary = doi = 10.1007/s11262-019-01719-2 id = cord-005207-02wmt2e9 author = Lee, Hee-Kyung title = Cloning and Sequence Analysis of the Nucleocapsid Gene of Porcine Epidemic Diarrhea Virus Chinju99 date = 2003 keywords = Chinju99 summary = The nucleocapsid (N) gene of the porcine epidemic diarrhea virus (PEDV) Chinju99 which was previously isolated in Chinju, Korea was cloned and sequenced to establish the information for the development of genetically engineered diagnostic reagents. The nucleotide sequence encoding the entire N gene open reading frame (ORF) of Chinju99 was 1326 bases long and encoded a protein of 441 amino acids with predicted M (r) of 49 kDa. It consisted of 405 adenine (30.5%), 293 cytosine (22.1%), 334 guanines (25.2%) and 294 thymines (22.2%) residues. In the present study, a DNA clone was constructed for the full-length N gene open reading frame (ORF) of PEDV isolated in Chinju, Korea. The complete sequences of nucleotides and deduced amino acids of the N gene were determined, and further analyzed with those of other PEDVs for the information in the production of genetically engineered diagnostic reagents. doi = 10.1023/a:1023447732567 id = cord-299573-vq6ckqtd author = Lee, Meong-Hun title = Phylogenetic analysis of porcine astrovirus in domestic pigs and wild boars in South Korea date = 2012-09-11 keywords = Korea; South summary = In this study, 25/129 (19.4 %) domestic pig and 1/146 (0.7 %) wild boar fecal samples tested in South Korea were positive for PAstV. Bayesian inference (BI) tree analysis for RNA-dependent RNA polymerase (RdRp) and capsid (ORF2) gene sequences, including Mamastrovirus and Avastrovirus, revealed a relatively geographically divergent lineage. It was also observed that PAstV infections are widespread in South Korea regardless of the disease state in domestic pigs and in wild boars as well. It was, therefore, the aim of this study to investigate the genetic groups of Korean PAstV in domestic pigs and wild boars and to identify the incidence of co-infection with other porcine enteric viruses as well. A study of the molecular epidemiology and genetic diversity of human astrovirus in South Korea from 2002 to 2007 revealed genotype 1 to be the most prevalent, accounting for 72.19 % of strains, followed by genotypes 8 Korean PAstVs are shown in bold prints, and strains isolates from Korean and Hungarian wild boar are marked with a star and an arrow, respectively. doi = 10.1007/s11262-012-0816-8 id = cord-005253-8qja4j9h author = Li, Weike title = Genetic characterization of an isolate of canine distemper virus from a Tibetan Mastiff in China date = 2014-04-02 keywords = CDV summary = This analysis shows that an N-glycosylation site at aa 108-110 within the F protein of CDV-TM-CC is specific for the wild-type strains (5804P, A75/17, and 164071) and the Asia-1 group strains, and may be another important factor for the poor immune response. Consistent with the results for the H protein, the homology of the deduced CDV-TM-CC amino acid sequence of the N protein to the Asia-1 strains (CYN07-hV, HLJ1-06, and Hebei) was high with 98.7-98.9 % identity, as shown in Fig. 4 . Analysis of the 1-135 aa signal peptide region of the F protein of CDV-TM-CC demonstrated the same set of amino acid variations in comparison with the Onderstepoort strain as for the other Asia-1 strains (CYN07-hV, HLJ1-06, and Hebei): 8 S/ 8 K, 11 T/ 11 P, 19 (Fig. 6) . doi = 10.1007/s11262-014-1062-z id = cord-295554-0pzjyrdf author = Lima, Francisco Esmaile de Sales title = Detection of Alphacoronavirus in velvety free-tailed bats (Molossus molossus) and Brazilian free-tailed bats (Tadarida brasiliensis) from urban area of Southern Brazil date = 2013-03-16 keywords = Brazil; bat summary = doi = 10.1007/s11262-013-0899-x id = cord-257122-h3zi8k8g author = Lin, Chao-Nan title = Full genome analysis of a novel type II feline coronavirus NTU156 date = 2012-12-14 keywords = NTU156 summary = doi = 10.1007/s11262-012-0864-0 id = cord-279863-5kxgu4t9 author = Oem, Jae-Ku title = Phylogenetic analysis of bovine astrovirus in Korean cattle date = 2013-11-23 keywords = Pig; cattle summary = doi = 10.1007/s11262-013-1013-0 id = cord-269720-o81j3d1j author = Page, Kevin W. title = Sequence analysis of the leader RNA of two porcine coronaviruses: Transmissible gastroenteritis virus and porcine respiratory coronavirus date = 1990 keywords = RNA; TGEV summary = doi = 10.1007/bf00570024 id = cord-025704-icedihm2 author = Pawestri, Hana A. title = Genetic and antigenic characterization of influenza A/H5N1 viruses isolated from patients in Indonesia, 2008–2015 date = 2020-06-01 keywords = H5N1; HPAI; Indonesia; virus summary = doi = 10.1007/s11262-020-01765-1 id = cord-272693-432ixb7g author = Phillips, J. E. title = Changes in nonstructural protein 3 are associated with attenuation in avian coronavirus infectious bronchitis virus date = 2011-09-10 keywords = Ark; GA98; IBV; Mass summary = doi = 10.1007/s11262-011-0668-7 id = cord-268627-nnx46nwf author = Ren, Xiaofeng title = Development of reverse transcription loop-mediated isothermal amplification for rapid detection of porcine epidemic diarrhea virus date = 2011-02-01 keywords = LAMP summary = In this study, a reverse transcription loop-mediated isothermal amplification (RT-LAMP) was developed for detection of porcine epidemic diarrhea virus (PEDV). The results showed that the optimal reaction condition for RT-LAMP amplifying PEDV N gene was achieved at 63°C for 50 min. The total RNAs were extracted from the culture supernatants of PEDV, TGEV, PRV, PRRSV, and IBV using the RNA extraction kit (KeyGen Biotech, China) and the genomic DNA of PrV was extracted from virus-infected Vero cell culture using the DNA extraction kit (Omega, Norcross, USA) according to the manufacturer''s instructions. As shown in Fig. 2a , the DNA products of the RT-LAMP at different temperatures showed multiple of characteristic ladder bands; however, the intensity of DNAs determined by Gel Analyzer software from the reactions at 63°C was stronger than that at other reaction temperatures, which was judged as the optimal temperature for RT-LAMP amplifying PEDV N gene. The sensitivity of the RT-LAMP assay was first compared with the conventional RT-PCR amplifying the tenfold serial dilutions of RNA templates of PEDV. doi = 10.1007/s11262-011-0570-3 id = cord-331919-6kistim2 author = Song, Daesub title = Porcine epidemic diarrhoea virus: a comprehensive review of molecular epidemiology, diagnosis, and vaccines date = 2012-01-22 keywords = PEDV summary = doi = 10.1007/s11262-012-0713-1 id = cord-263489-i4tkdgy4 author = Suo, Siqingaowa title = Phage display for identifying peptides that bind the spike protein of transmissible gastroenteritis virus and possess diagnostic potential date = 2015-05-27 keywords = TGEV summary = title: Phage display for identifying peptides that bind the spike protein of transmissible gastroenteritis virus and possess diagnostic potential Herein, we use similar technology and advance previous work by using the rS-AD as an immobilizing target to select phages from a peptide display library, with diagnostic potential for TGEV. Our results indicate that phages bearing peptide ligands that bind rS-AD can be used to develop a phage-mediated ELISA with high sensitivity and specificity to distinguish TGEV from other common swine viruses. To compare the sensitivities of phage-mediated ELISA to antibody-mediated ELISA, TGEV serially diluted in 0.1 M NaHCO 3 (pH 8.6) was coated onto duplicate ELISA plates overnight at 4°C followed by blocking with 5 % skim milk for 3 h at rt. Predicted amino acid sequences were generated for ten selected phages In summary, we identified peptides that specifically bind to TGEV and can form the basis of new diagnostic tests where the sensitivity of phTGEV-SAD15 was 0.1 lg of TGEV. doi = 10.1007/s11262-015-1208-7 id = cord-310298-26x2p9wc author = Tao, Pan title = Analysis of synonymous codon usage in classical swine fever virus date = 2008-10-29 keywords = CSFV; codon summary = Using the complete genome sequences of 35 classical swine fever viruses (CSFV) representing all three genotypes and all three kinds of virulence, we analyzed synonymous codon usage and the relative dinucleotide abundance in CSFV. The general correlation between base composition and codon usage bias suggests that mutational pressure rather than natural selection is the main factor that determines the codon usage bias in CSFV. As shown in Table 4 , the first axis value in COA of each selected genome, which contains most of the variation in synonymous codon usage bias between these genomes, is closely correlated with the GC composition at the first, second, and third codon position. Mean values of 35 CSFVs relative dinucleotide ratios ± S.D Table 3 Summary of correlation analysis between the first two axes in COA and sixteen dinucleotides in the selected viruses , indicating that the overall extent of codon usage bias in CSFV genomes is low. doi = 10.1007/s11262-008-0296-z id = cord-265095-lf5j4ic7 author = Ten Dam, Edwin B. title = RNA pseudoknots: Translational frameshifting and readthrough on viral RNAs date = 1990 keywords = Fig; RNA summary = doi = 10.1007/bf00678404 id = cord-346643-os2kyvvf author = Wang, Li title = Inhibition of porcine transmissible gastroenteritis virus infection in porcine kidney cells using short hairpin RNAs targeting the membrane gene date = 2016-11-15 keywords = TGEV summary = doi = 10.1007/s11262-016-1409-8 id = cord-254291-y8xvh6hs author = Yamanaka, Miles title = Nucleotide Sequence of the Inter-Structural Gene Region of Feline Infectious Peritonitis Virus date = 1998 keywords = FIPV summary = The sequence of the region located between the S and M glycoprotein genes of the 79-1146 strain of feline infectious peritonitis virus (FIPV) is presented. The inter-structural gene region encodes 3 open reading frames (ORFs), termed ORFs 3a, 3b and 4, with nucleotide sequences conforming to the minimum conserved transcription signal upstream of each. The FIPV interstructural gene region is identical in length when compared to the Insavc-1 strain of canine coronavirus (CCV) but differs from various strains of transmissible gastroenteritis virus (TGEV) by the presence of deletions and insertions. This inter-structural gene region has been examined in the related coronaviruses transmissible gastroenteritis virus (TGEV) and canine coronavirus (CCV) (2±6). The arrangement of the open reading frames (ORFs) in the inter-structural gene region has been described for the FIPV genome (1,7), but detailed sequence has not been presented. The sequence identity between FIPV 79-1146 and the Purdue strain of TGEV in the inter-structural gene region is 90.7%. doi = 10.1023/a:1008099209942 id = cord-307580-nokd5kmx author = Yang, Guang title = D-RNA Molecules Associated with Subisolates of the VT Strain of Citrus Tristeza Virus which Induce Different Seedling-Yellows Reactions date = 1999 keywords = CTV summary = doi = 10.1023/a:1008105004407 id = cord-282126-gmjnbnx5 author = Yang, Limin title = Development and application of a reverse transcription loop-mediated isothermal amplification method for rapid detection of Duck hepatitis A virus type 1 date = 2012-08-07 keywords = LAMP summary = doi = 10.1007/s11262-012-0798-6 id = cord-284675-7zv449sc author = Yew, Tan Do title = Base Usage and Dinucleotide Frequency of Infectious Bursal Disease Virus date = 2004 keywords = IBDV; PCA; VP5 summary = doi = 10.1023/b:viru.0000012262.89898.c7 id = cord-340438-9q3ic0ye author = Zhang, Jianqiang title = Identification of porcine epidemic diarrhea virus variant with a large spike gene deletion from a clinical swine sample in the United States date = 2018-02-21 keywords = INDEL; PEDV summary = doi = 10.1007/s11262-018-1542-7 id = cord-311204-fc12f845 author = Zhou, Ling title = Full-length genomic characterization and molecular evolution of canine parvovirus in China date = 2016-04-02 keywords = CPV-2; PCR summary = Canine parvovirus type 2 (CPV-2) can cause acute haemorrhagic enteritis in dogs and myocarditis in puppies. Some faecal samples were negative for the CPV-2 antigen based on a colloidal gold test strip but were positive based on PCR, and a viral strain was isolated from one such sample. Identification of CPV-2 with cell culture and IPMA Feline kidney cell line F81 was obtained from the American Type Culture Collection, USA and was used to isolate viruses from clinical samples and to observe cytopathic effects associated with viral replication. Cloning the full-length genomic sequence of CPV-2 DNA and RNA were extracted from the homogenized samples (faeces from infected dogs) with the TIANamp Virus DNA/RNA Kit (Beijing TIANGEN Biotech Company, Beijing, China) according to the manufacturer''s protocol. One viral strain was isolated from the faeces of dogs that tested negative in the colloidal gold test strip but positive with PCR. doi = 10.1007/s11262-016-1309-y id = cord-302584-fwdpzv85 author = Zhu, Ying title = Isolation of Virus from a SARS Patient and Genome-wide Analysis of Genetic Mutations Related to Pathogenesis and Epidemiology from 47 SARS-CoV Isolates date = 2005-01-01 keywords = CoV; SARS; WHU summary = doi = 10.1007/s11262-004-4586-9