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Detection and molecular analysis of bovine enteric norovirus and nebovirus in Turkey

Turhan Turan
Turhan Turan
, 
Hakan Işıdan
Hakan Işıdan
, 
Mustafa Ozan Atasoy
Mustafa Ozan Atasoy
 und 
Bünyamin Irehan
Bünyamin Irehan
   | 07. Juli 2018
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Online veröffentlicht: 07. Juli 2018
Seitenbereich: 129 - 135
Eingereicht: 08. März 2018
Akzeptiert: 20. Juni 2018
DOI: https://doi.org/10.2478/jvetres-2018-0021
Schlüsselwörter
© 2018 Turhan Turan et al., published by Sciendo
This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 3.0 License.

Fig. 1

Sampling area
Sampling area

Fig. 2

cladogram representing the phylogenic tree of bovine neboviruses based on 274 bp sequences. Each coloured branch indicates a different genotypes. Tree construction was built with use of Unipro UGENE v.1.21 software (14)
cladogram representing the phylogenic tree of bovine neboviruses based on 274 bp sequences. Each coloured branch indicates a different genotypes. Tree construction was built with use of Unipro UGENE v.1.21 software (14)

Fig. 3

Norovirus phylogenic tree constructed on 422 bp sequences. Alignment and classification of all genome data were performed by the UPGMA method with Unipro UGENE v. 1.21 software (14). Strains were coloured according to their genogroups. Novel norovirus sequences are shown as ruby red colour
Norovirus phylogenic tree constructed on 422 bp sequences. Alignment and classification of all genome data were performed by the UPGMA method with Unipro UGENE v. 1.21 software (14). Strains were coloured according to their genogroups. Novel norovirus sequences are shown as ruby red colour

Oligonucleotide data used in the study

VirusNameSequenceAmplicon size (bp)LocationReference
Nebo2FTYTAYGACGGGCGCTWTTATGG
NebovirusNebo1RAGACAGTGCCGAAAAGGGTGTA2824984–5265aThis study
BoNoV851-FATGTGGTVCAGGCNAACAGCTA
BoNoV1350-RACTACCTTCCCACARHGACARA5004538–5037bThis study
NorovirusIIIBovNo-FCGCTCCATGTTYGCBTGG
IIIBovNo-RATCAGCACATGRGGRAACTG5164972–5487c(13)

GenBank accession numbers of noro- and nebovirus strains used in genetic analysis

GenusStrainAccession numberGenotype
Mu/NoV/GV/MNV1/2002/USAAY228235.2GV
NLV/SaintCloud/624/1998/USAF414427.1GIV. 1
NLV/Brattleboro/321/1995/USAF414415.1GII.3
Toronto/ CANU02030GII.3
SOV/ UKL07418GI.2
NV/USAM87661GI.1
Bo/Thirsk10/00/UKAY126468.2GIII. 1
Bo/Jena/DEAJ011099GIII. 1
Bo/ DuzceN2/2010/TURKF218823.1GIII.2
Bo/SivasN6/2011/TURKF218824.1GIII.2
bovine/ DijonA077/06/FRGU259577.1GIII.2
bovine/ DijonA436/08/FRGU259579.1GIII.2
Bo/Newbury2/1976/UKAF097917.5GIII.2
Bo/NoV/JN-MA156/04/KoreaDQ912792.1GIII.2
Bo/ Dumfries/94/UKAY126474.2GIII.2
Bo/AdiyamanN6/2011/TURKF218825.1GIII.2
Bo/BalikesirN9/2009/TURKF218822.1GIII.2
bovine/GIII.2/471_0790/2005/NORFM242193.1GIII.2
bovine/GIII.2/718_0785/2006/NORFM242191.1GIII.2
bovine/GIII.2/312_0529/2006/NORFM242186.1GIII.2
bovine/GIII.2/240_0243/2005/NORFM242189.1GIII.2
Bo/Nov-33/USA/2010JN585051.1GIII.2
BoNoV/ Bolat7/2016/TRMG022084GIII.2
BoNoV/Bolat85/2016/TRMG022085GIII.2
Bo/Nov-45/USA/2010JN585060.1GIII.2
Bo/Nov-6/USA/2010JN585033.1GIII.2
NorovirusBo/Nov-16/USA/2010JN585041.1GIII.2
Bo/Nov-10/USA/2010JN585036.1GIII.2
Bo/Nov-2/USA/2010JN585029.1GIII.2
Bo/Nov-1/USA/2010JN585028.1GIII.2
Bo/Nov-13/USA/2010JN585038.1GIII.2
Bo/NoV/JN-MA140/04/KoreaDQ912791.1GIII.2
Bo/NoV/JN-MA302/04/KoreaDQ912797.1GIII.2
Bo/NoV/JN-MA271/04/KoreaDQ912795.1GIII.2
Bo/NoV/JN-SA296/04/KoreaDQ912796.1GIII.2
bovine/ DijonA407/08/FRGU259575.1GIII.2
Bo/MonastirB139/2009/TUNJN418489.1GIII.2
bovine/Belgium/B52/2002/BeAY686489.2GIII.2
bovine/XJSHZ148/2011/CNJQ905268.1GIII.2
BEC200/ITHM745911.1GIII.2
Bo/Penrith55/00/UKAY126476.1GIII.2
BEC830/ITHM745913.1GIII.2
Bovine/ Wasme/B200/2003/BeAY686494.1GIII.2
Bovine/Wasme/B199/2003/BeAY686493.1GIII.2
CV186-OHAF542084.1GIII.2
CV95-OHAF542083.1GIII.2
Bo/ 21Z90/GIII.2/2012/IranKM650007.1GIII.2
BEC483/ITHM745909.1GIII.2
Bovine/ Mohiville/B 123/2002/BeAY686490.2GIII.2
Bo/4Z90/GIII.2/2012/IranKM650013.1GIII.2
Bo/6P90/GIII.2/2011/IranKM650011.1GIII.2
Bo/ 58B89/GIII.2/2010/IranKM650009.1GIII.2
Bo/27T90/GIII.2/2011/IranKM650012.1GIII.2
Bo/BEC/PenrithC39/2000/UKDQ228162
Bo/M3641/2000/HUNJX018212
bovine/ DijonA290-2/07/FRGU259551
bovine/DijonA386/08/FRGU259561
bovine/ DijonA364/08/FRGU259556
Bo/Nebraska/80/USAY082891
bovine/DijonA058/05/FRGU259542
Bo/BEC/Penrith140/2000/UKDQ228159
Bo/ BEC/Starcross93/2000/UKDQ228165
NebovirusBo/CV548-OH/2002/USAY549172
Bo/ CV531-OH/2002/USAY549171
Bo/ CV526-OH/2002/USAY549170
Bo/ CV504-OH/2002/USAY549168
Bo/ CV562-OH/2002/USAY549173
Bo/BEC/Starcross117/2000/UKDQ228164
Bo/BEC/Penrith142/2000/UKDQ228160
Bo/BEC/Penrith143/2000/UKDQ228161
Bo/ BEC/Penrith 150/2000/UKDQ228157
Bo/Newbury1/76/UKNC_007916
Bo/ DijonA216/06/FRFJ687386
BoNeV/ Sivas100/2016/TRMG022086
BoNeV/ Sivas120/2016/TRMG022087
BoNeV/ Sivas54/2016/TRMG022088
BoNeV/ Sivas60/2016/TRMG022089
BoNeV/ Sivas63/2016/TRMG022090
BoNeV/ Sivas64/2016/TRMG022091
BoNeV/ Sivas75/2016/TRMG022092
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