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Prevalence of the root lesion nematode virus (RLNV1) in populations of Pratylenchus penetrans from North America

Paulo Vieira
Paulo Vieira
, 
Amy Peetz
Amy Peetz
, 
Benjamin Mimee
Benjamin Mimee
, 
Kanan Saikai
Kanan Saikai
, 
Dimitre Mollov
Dimitre Mollov
, 
Ann MacGuidwin
Ann MacGuidwin
, 
Inga Zasada
Inga Zasada
 oraz 
Lev G. Nemchinov
Lev G. Nemchinov
   | 18 maj 2020
Journal of Nematology's Cover Image
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Data publikacji: 18 maj 2020
Zakres stron: 1 - 10
Otrzymano: 29 sty 2020
DOI: https://doi.org/10.21307/jofnem-2020-045
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© 2020 Paulo Vieira et al., published by Sciendo.
This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.

Figure 1:

Reverse transcription-polymerase chain reaction (RT-PCR) detection of the root lesion nematode virus (RLNV1) from cDNA libraries generated from 21 out of the 31 populations of Pratylenchus penetrans collected in North America. PCR amplification was performed using specific primers for the RLNV1 helicase (A) and RdRP (B) regions. The isolate NL 10p RH was used as positive control for the detection of the RNLV1. C: The nematode 18 S rRNA gene was used as a positive control to validate the presence of P. penetrans transcripts within each generated cDNA library.
Reverse transcription-polymerase chain reaction (RT-PCR) detection of the root lesion nematode virus (RLNV1) from cDNA libraries generated from 21 out of the 31 populations of Pratylenchus penetrans collected in North America. PCR amplification was performed using specific primers for the RLNV1 helicase (A) and RdRP (B) regions. The isolate NL 10p RH was used as positive control for the detection of the RNLV1. C: The nematode 18 S rRNA gene was used as a positive control to validate the presence of P. penetrans transcripts within each generated cDNA library.

Results of the virus detection in different populations of Pratylenchus penetrans, and associated host plants.

Detection and sequencing
Genus Species Population No. of individuals Host Origin of population Helicase RdRP
Pratylenchus penetrans NL 10p RH Bulk Corn Beltsville, Maryland Yes* Yes*
Pratylenchus penetrans R3605 Bulk Potato NA, Michigan − −
Pratylenchus penetrans R3606 Bulk Potato NA, Michigan Yes Yes
Pratylenchus penetrans Greenhouse 200 Mint Various locations from OR and WA Yes Yes
Pratylenchus penetrans Cherry 120 Cherry Hood River, OR − −
Pratylenchus penetrans CAR 200 Apple Kenniwick, WA Yes Yes
Pratylenchus penetrans Pole Road 200 Raspberry Lynden, WA − −
Pratylenchus penetrans R-BDM Bulk Raspberry Lynden, WA − −
Pratylenchus penetrans 82−13 Bulk Soybean Calumet Co., WI − −
Pratylenchus penetrans 511−14 Bulk Soybean Chippewa Co., WI − −
Pratylenchus penetrans 546−16 Bulk Soybean Chippewa Co., WI Yes Yes
Pratylenchus penetrans 736−13 Bulk Soybean Grant Co., WI Yes Yes
Pratylenchus penetrans 92−16 Bulk Soybean Iowa Co., WI − −
Pratylenchus penetrans 99−16 Bulk Soybean Lafayette Co., WI − −
Pratylenchus penetrans 128−16 Bulk Soybean Marathon Co., WI − −
Pratylenchus penetrans 551−14 Bulk Soybean Marquette Co., WI − −
Pratylenchus penetrans Malek Bulk Potato Portage CO., WI Yes Yes
Pratylenchus penetrans P* Bulk Potato Portage CO., WI Yes Yes
Pratylenchus penetrans PRF Bulk Potato Portage CO., WI Yes Yes
Pratylenchus penetrans PP6-1 Bulk Potato Portage CO., WI − −
Pratylenchus penetrans 469A-13 Bulk Soybean Sheboygan Co., WI Yes Yes
Pratylenchus penetrans Lauer Bulk Potato Waushara Co., WI Yes Yes
Pratylenchus penetrans 422−14 Bulk Soybean Wood Co., WI − −
Pratylenchus penetrans PA Bulk Corn NA Yes Yes
Pratylenchus penetrans R3784 Bulk Potato New Brunswick, CA** No Yes
Pratylenchus penetrans R3790 Bulk Potato New Brunswick, CA** Yes Yes
Pratylenchus penetrans R3794 Bulk Potato New Brunswick, CA** Yes Yes
Pratylenchus penetrans R3813 Bulk Potato New Brunswick, CA** − −
Pratylenchus penetrans R3816 Bulk Potato New Brunswick, CA** − −
Pratylenchus penetrans R3739 Bulk Potato Prince Edward Island, CA** − −
Pratylenchus penetrans R3771 Bulk Potato Prince Edward Island, CA** − −
Pratylenchus penetrans QCLA Bulk Potato L'Acadie, Quebec, CA** − −

Nucleotide (A) and protein (B) pairwise comparisons of the helicase sequence data of different RLNV1 isolates from Pratylenchus penetrans.

A
RLNV1 3606 Green house Car 546-16 736-13 Malele P* PRF 469A Lauer PA R3794 R3790
RLNV1 98.65 98.77 99.26 98.53 98.89 96.93 98.89 99.63 98.89 98.65 99.75 98.65 99.63
3606 11 99.39 99.14 99.14 99.51 96.56 99.51 99.02 99.51 99.75 98.89 99.75 99.02
Greenhouse 10 5 99.26 99.26 99.63 96.93 99.63 99.14 99.63 99.39 99.02 99.39 99.14
Car 6 7 6 99.26 99.63 97.17 99.63 99.63 99.63 99.14 99.51 99.14 99.63
546-16 12 7 6 6 99.63 96.44 99.63 98.89 99.63 99.14 98.77 99.14 98.89
736-13 9 4 3 3 3 96.81 100 99.26 100 99.51 99.14 99.51 99.26
Malele 25 28 25 23 29 26 96.81 97.3 96.81 96.56 97.17 96.56 97.3
P* 9 4 3 3 3 0 26 99.26 100 99.51 99.14 99.51 99.26
PRF 3 8 7 3 9 6 22 6 99.26 99.02 99.88 99.02 100
469A 9 4 3 3 3 0 26 0 6 99.51 99.14 99.51 99.26
Lauer 11 2 5 7 7 4 28 4 8 4 98.89 99.75 99.02
PA 2 9 8 4 10 7 23 7 1 7 9 98.89 99.88
R3794 11 2 5 7 7 4 28 4 8 4 2 9 99.02
R3790 3 8 7 3 9 6 22 6 0 6 8 1 8
B
RLNV1 3606 Green house Car 546-16 736-13 Malele P* PRF 469A Lauer PA R3794 R3790
RLNV1 99.63 100 100 99.26 100 100 100 100 100 100 100 100 100
3606 1 99.63 99.63 98.89 99.63 99.63 99.63 99.63 99.63 99.63 99.63 99.63 99.63
Greenhouse 0 1 100 99.26 100 100 100 100 100 100 100 100 100
Car 0 1 0 99.26 100 100 100 100 100 100 100 100 100
546-16 2 3 2 2 99.26 99.26 99.26 99.26 99.26 99.26 99.26 99.26 99.26
736-13 0 1 0 0 2 100 100 100 100 100 100 100 100
Malele 0 1 0 0 2 0 100 100 100 100 100 100 100
P* 0 1 0 0 2 0 0 100 100 100 100 100 100
PRF 0 1 0 0 2 0 0 0 100 100 100 100 100
469A 0 1 0 0 2 0 0 0 0 100 100 100 100
Lauer 0 1 0 0 2 0 0 0 0 0 100 100 100
PA 0 1 0 0 2 0 0 0 0 0 0 100 100
R3794 0 1 0 0 2 0 0 0 0 0 0 0 100
R3790 0 1 0 0 2 0 0 0 0 0 0 0 0

Nucleotide (A) and protein (B) pairwise comparisons of the RdRP sequence data of different RLNV1 isolates from Pratylenchus penetrans.

A
RLNV1 3606 Green house Car 546-16 736-13 Malele P* PRF 469A Lauer PA R3784 R3790 R3794
RLNV1 99.16 99.16 98.74 98.95 98.85 97.9 98.85 99.69 98.95 99.27 99.79 98.43 98.85 98.64
3606 8 99.58 98.95 99.16 99.06 97.48 99.06 99.48 99.16 99.69 99.16 99.06 98.64 99.27
Greenhouse 8 4 99.37 99.58 99.48 97.48 99.48 99.48 99.58 99.48 99.16 98.85 98.64 99.06
Car 12 10 6 99.79 99.69 97.06 99.69 99.06 99.79 98.85 98.74 98.22 98.22 98.43
546-16 10 8 4 2 99.9 97.27 99.9 99.27 100 99.06 98.95 98.43 98.43 98.64
736-13 11 9 5 3 1 97.17 99.79 99.16 99.9 98.95 98.85 98.32 98.32 98.53
Malele 20 24 24 28 26 27 97.17 98.01 97.27 97.38 97.69 96.75 97.17 96.96
P* 11 9 5 3 1 2 27 99.16 99.9 98.95 98.85 98.32 98.32 98.53
PRF 3 5 5 9 7 8 19 8 99.27 99.37 99.69 98.74 99.16 98.95
469A 10 8 4 2 0 1 26 1 7 99.06 98.95 98.43 98.43 98.64
Lauer 7 3 5 11 9 10 25 10 6 9 99.27 98.95 98.53 99.16
PA 2 8 8 12 10 11 22 11 3 10 7 98.43 98.85 98.64
R3784 15 9 11 17 15 16 31 16 12 15 10 15 99.37 99.79
R3790 11 13 13 17 15 16 27 16 8 15 14 11 6 99.37
R3794 13 7 9 15 13 14 29 14 10 13 8 13 2 6
B
RLNV1 3606 Green house Car 546-16 736-13 Malele P* PRF 469A Lauer PA R3784 R3790 R3794
RLNV1 99.37 99.68 99.68 99.68 99.68 99.37 99.37 99.68 99.68 100 100 98.42 98.11 98.42
3606 2 99.68 99.68 99.68 99.68 99.37 99.37 99.68 99.68 99.37 99.37 98.42 98.11 98.42
Greenhouse 1 1 100 100 100 99.68 99.68 100 100 99.68 99.68 98.74 98.42 98.74
Car 1 1 0 100 100 99.68 99.68 100 100 99.68 99.68 98.74 98.42 98.74
546-16 1 1 0 0 100 99.68 99.68 100 100 99.68 99.68 98.74 98.42 98.74
736-13 1 1 0 0 0 99.68 99.68 100 100 99.68 99.68 98.74 98.42 98.74
Malele 2 2 1 1 1 1 99.37 99.68 99.68 99.37 99.37 98.42 98.11 98.42
P* 2 2 1 1 1 1 2 99.68 99.68 99.37 99.37 98.42 98.11 98.42
PRF 1 1 0 0 0 0 1 1 100 99.68 99.68 98.74 98.42 98.74
469A 1 1 0 0 0 0 1 1 0 99.68 99.68 98.74 98.42 98.74
Lauer 0 2 1 1 1 1 2 2 1 1 100 98.42 98.11 98.42
PA 0 2 1 1 1 1 2 2 1 1 0 98.42 98.11 98.42
R3784 5 5 4 4 4 4 5 5 4 4 5 5 99.68 100
R3790 6 6 5 5 5 5 6 6 5 5 6 6 1 99.68
R3794 5 5 4 4 4 4 5 5 4 4 5 5 0 1
eISSN:
2640-396X
Język:
Angielski
Częstotliwość wydawania:
Volume Open
Dziedziny czasopisma:
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