An insight into misidentification of the small-subunit ribosomal RNA (18S rRNA) gene sequences of Theileria spp. as Theileria annulata.
18S rRNA
Genetic diversity
Misidentification
Sequence analysis
Theileria annulata
Theileria spp.
Journal
BMC veterinary research
ISSN: 1746-6148
Titre abrégé: BMC Vet Res
Pays: England
ID NLM: 101249759
Informations de publication
Date de publication:
28 Dec 2022
28 Dec 2022
Historique:
received:
16
08
2022
accepted:
05
12
2022
entrez:
28
12
2022
pubmed:
29
12
2022
medline:
31
12
2022
Statut:
epublish
Résumé
There had been isolated reports of the presence of novel Theileria annulata genotypes based on the 18S rRNA gene sequence data from India, Pakistan and Saudi Arabia; but, these studies were restricted to limited field samples. Additionally, no comparative study has been conducted on all the isolates of this parasite from different countries whose sequences are available in the nucleotide databases. Therefore, we aimed to study the genetic diversity of T. annulata based on all available nearly complete 18S rRNA gene sequences in the GenBank™. Out of a total of 312 gene sequences of T. annulata available in the NCBI database, only 70 nearly complete sequences (> 1527 bp) were used for multiple sequence alignment. The maximum likelihood tree obtained using TN93 + G + I model manifested two major clades. All the valid host-cell transforming Theileria species clustered in one clade. The T. annulata designated sequences occupying this clade clustered together, excluding two isolates (DQ287944 and EU083799), and represented the true T. annulata sequences (n = 54). DQ287944 and EU083799 exhibited close association with Theileria lestoquardi. In addition, 14 Indian sequences formed a large monophyletic group with published Theileria orientalis sequences. The broad range of sequence identity (95.8-100%) of T. annulata designated sequences indicated the presence of different Theileria spp. A closer analysis revealed the presence of three Theileria spp., namely, T. annulata, T. orientalis, and two isolates (DQ287944 and EU083799) closely related to T. lestoquardi. The true T. annulata sequences manifested 98.8-100% nucleotide identity within them. EU083799 and 14 misidentified Indian T. annulata sequences exhibited the highest similarity with T. lestoquardi (98.6-98.8%) and T. orientalis (98.0-99.9%) in comparison with the other Theileria spp. of domestic and wild ruminants. In the course of analyzing the genetic diversity of T. annulata, we identified the nearly complete 18S rRNA gene sequences of other Theileria spp. that have not only been misidentified as T. annulata in the GenBank™, but are also published as T. annulata. Moreover, a high level of sequence conservation was noticed in the 18S rRNA gene of true T. annulata and T. orientalis sequences.
Sections du résumé
BACKGROUND
BACKGROUND
There had been isolated reports of the presence of novel Theileria annulata genotypes based on the 18S rRNA gene sequence data from India, Pakistan and Saudi Arabia; but, these studies were restricted to limited field samples. Additionally, no comparative study has been conducted on all the isolates of this parasite from different countries whose sequences are available in the nucleotide databases. Therefore, we aimed to study the genetic diversity of T. annulata based on all available nearly complete 18S rRNA gene sequences in the GenBank™. Out of a total of 312 gene sequences of T. annulata available in the NCBI database, only 70 nearly complete sequences (> 1527 bp) were used for multiple sequence alignment.
RESULTS
RESULTS
The maximum likelihood tree obtained using TN93 + G + I model manifested two major clades. All the valid host-cell transforming Theileria species clustered in one clade. The T. annulata designated sequences occupying this clade clustered together, excluding two isolates (DQ287944 and EU083799), and represented the true T. annulata sequences (n = 54). DQ287944 and EU083799 exhibited close association with Theileria lestoquardi. In addition, 14 Indian sequences formed a large monophyletic group with published Theileria orientalis sequences. The broad range of sequence identity (95.8-100%) of T. annulata designated sequences indicated the presence of different Theileria spp. A closer analysis revealed the presence of three Theileria spp., namely, T. annulata, T. orientalis, and two isolates (DQ287944 and EU083799) closely related to T. lestoquardi. The true T. annulata sequences manifested 98.8-100% nucleotide identity within them. EU083799 and 14 misidentified Indian T. annulata sequences exhibited the highest similarity with T. lestoquardi (98.6-98.8%) and T. orientalis (98.0-99.9%) in comparison with the other Theileria spp. of domestic and wild ruminants.
CONCLUSION
CONCLUSIONS
In the course of analyzing the genetic diversity of T. annulata, we identified the nearly complete 18S rRNA gene sequences of other Theileria spp. that have not only been misidentified as T. annulata in the GenBank™, but are also published as T. annulata. Moreover, a high level of sequence conservation was noticed in the 18S rRNA gene of true T. annulata and T. orientalis sequences.
Identifiants
pubmed: 36577977
doi: 10.1186/s12917-022-03540-w
pii: 10.1186/s12917-022-03540-w
pmc: PMC9795727
doi:
Substances chimiques
RNA, Ribosomal, 18S
0
Nucleotides
0
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
454Informations de copyright
© 2022. The Author(s).
Références
Iran J Parasitol. 2012;7(2):73-81
pubmed: 23109949
PLoS One. 2015 Jun 10;10(6):e0129678
pubmed: 26061414
Parasitology. 2003 Mar;126(Pt 3):241-52
pubmed: 12666883
Int J Parasitol Parasites Wildl. 2015 Jan 06;4(1):104-18
pubmed: 25830110
Korean J Parasitol. 2013 Oct;51(5):511-7
pubmed: 24327775
Parasitology. 2011 May;138(6):766-79
pubmed: 21349232
Sci Rep. 2019 Nov 6;9(1):16132
pubmed: 31695080
Animals (Basel). 2021 Dec 02;11(12):
pubmed: 34944220
Parasitol Res. 2002 May;88(13 Suppl 1):S51-5
pubmed: 12051612
Int J Parasitol. 2012 Apr;42(4):353-63
pubmed: 22429769
Nucleic Acids Res. 1994 Nov 11;22(22):4673-80
pubmed: 7984417
Trop Biomed. 2013 Jun;30(2):281-90
pubmed: 23959494
Parasitol Res. 2000 Jun;86(6):444-52
pubmed: 10894469
Mol Biol Evol. 2018 Jun 1;35(6):1547-1549
pubmed: 29722887
Res Vet Sci. 1980 Jul;29(1):93-7
pubmed: 6779361
Ticks Tick Borne Dis. 2021 Sep;12(5):101776
pubmed: 34271342
Infect Genet Evol. 2019 Nov;75:103962
pubmed: 31302242
Vet Parasitol. 2020 Mar;279:109044
pubmed: 32032840
Parasitol Res. 2018 Apr;117(4):1271-1276
pubmed: 29516215
Int J Parasitol Parasites Wildl. 2015 Aug 29;4(3):333-42
pubmed: 26543804
Exp Appl Acarol. 2021 Mar;83(3):461-473
pubmed: 33599889
Vet Parasitol. 2006 Dec 20;142(3-4):238-47
pubmed: 16919391
Trop Anim Health Prod. 1997 Nov;29(4 Suppl):1S-3S
pubmed: 9512735
Vet Parasitol. 2011 Dec 15;182(2-4):150-62
pubmed: 21700394
Acta Trop. 2021 Dec;224:106121
pubmed: 34481790
J Clin Microbiol. 1995 Oct;33(10):2665-9
pubmed: 8567902
Parasitol Int. 2015 Feb;64(1):79-85
pubmed: 25305419
Parasitol Res. 2020 Oct;119(10):3347-3357
pubmed: 32833051
Parasit Vectors. 2015 Sep 17;8:468
pubmed: 26381127
PLoS One. 2021 Sep 16;16(9):e0249417
pubmed: 34529664
Vet Res Commun. 2001 Apr;25(3):179-88
pubmed: 11334147
Infect Genet Evol. 2013 Jan;13:124-32
pubmed: 23059196
Brief Bioinform. 2019 Jul 19;20(4):1160-1166
pubmed: 28968734
Infect Genet Evol. 2022 Apr;99:105252
pubmed: 35183753
Ticks Tick Borne Dis. 2018 Sep;9(6):1489-1493
pubmed: 30033328
Parasitology. 2004;129 Suppl:S271-83
pubmed: 15938515
Mol Biol Evol. 1993 May;10(3):512-26
pubmed: 8336541
Parasitology. 1994 Feb;108 ( Pt 2):147-52
pubmed: 8159459
Int J Parasitol. 2000 Oct;30(11):1181-5
pubmed: 11027785
Parasitol Res. 1999 Nov;85(11):877-83
pubmed: 10540946
Ticks Tick Borne Dis. 2021 May;12(3):101652
pubmed: 33465662
Q Rev Biol. 1991 Dec;66(4):411-53
pubmed: 1784710
Iran J Vet Res. 2020 Fall;21(4):250-256
pubmed: 33584836
Infect Genet Evol. 2014 Oct;27:250-63
pubmed: 25102031