Multilocus Genotyping of ‘Candidatus Phytoplasma solani’ Associated with Rubbery Taproot Disease of Sugar Beet in the Pannonian Plain
Abstract
:1. Introduction
2. Materials and Methods
2.1. Symptom Observation and Sample Collection
2.2. Nucleic Acid Extraction and ‘Ca. A. phytopathogenicus’ Detection
2.3. ‘Ca. P. solani’ Detection and MLSA
2.3.1. Stamp Gene
2.3.2. Tuf Gene
2.3.3. Vmp1 Gene
3. Results
3.1. RTD, with Its Associated Agent ‘Ca. P. solani’, Is Present in All Assessed Countries in the Pannonian Plain
3.2. Multilocus Characterization of the RTD-Associated ‘Ca. P. solani’ Strains Revealed a High Overall Diversity, but a Low Diversity at Localities with Epidemic Disease Occurrence
3.2.1. Stamp Genotypisation Showed Predominance of Genotypes Related to tuf-b1/tuf-d Types and Minor Presence of the Ones Related to tuf-a/tuf-b2 in Sugar Beet
3.2.2. Tuf Genotypisation Revealed Presence of All Four tuf Types Previously Known in Europe, with Prevalence of the tuf-d Type
3.2.3. Vmp1 RFLP Analyses Revealed Five Previously Described and One New Profile
3.2.4. MLSA Revealed Prevalence of the Newly Described Three Loci Genotype dSTOLg with Its Exclusive Presence on Six Localities
4. Discussion
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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Locality/Country (GPS) | RTD Incidence | Phytoplasma Positive/Tested Samples | tuf/stamp/vmp1 Genotype | No. of Samples | Representative Strain | Acc. No. tuf/stamp/vmp1 |
---|---|---|---|---|---|---|
1. Bačko Dobro Polje/SRB (45°31′59.7″ N 19°40′49.2″ E) | 0.1% | 15/151 | tuf-d/STOL/V2-TA | 14 | ||
2. Bačko Gradište/SRB (45°31′03.7″ N 19°59′25.1″ E) | 5.7% | 15/15 | tuf-d/STOL/V2-TA | 5 | ||
tuf-b1/STOL/n.a. | 1 | |||||
tuf-b1/Rqg50/V4 | 2 | 1204/20 | MZ927444/MZ604949/OK041397 | |||
tuf-b1/GGY/V14 | 1 | 1205/20 | MZ927445/MZ604950/OK041401 | |||
tuf-b1/Rqg31/V2-TA | 2 | |||||
tuf-b1/Rqg31/V14 | 2 | |||||
tuf-a/SB5/V3 | 1 | 1202/20 | MZ927432/MZ604951/OK041396 | |||
n.a./RTD2/n.a. | 1 | 1198/20 | n.a./MZ604952/n.a. | |||
3. Bečej/SRB (45°39′56.2″ N 19°53′19.0″ E) | 0.1% | 13/13 | tuf-d/STOL/V2-TA | 11 | ||
tuf-b1/Rqg31/V2-TA | 2 | 1711/20 | MZ927454/MZ604959/OK041389 | |||
4. Erdevik/SRB (45°06′20.1″ N 19°24′31.1″ E) | 7.2% | 15/15 | tuf-d/STOL/V2-TA | 10 | ||
tuf-d/STOL/V2-TA-D | 1 | 685/20 | MZ927429/MZ604944/OK041385 | |||
tuf-b1/STOL/V2-TA | 2 | 696/20 | MZ927430/MZ604945/OK041387 | |||
tuf-b1/STOL/V2-TA-D | 2 | 692/20 | MZ927431/MZ604946/OK041386 | |||
5. Kikinda/SRB (45°50′58.1″ N 20°25′10.2″ E) | 0.4% | 13/14 | tuf-d/STOL/V2-TA | 4 | ||
tuf-d/STOL/V4 | 2 | 1222/20 | MZ927449/MZ604953/OK041399 | |||
tuf-b1/STOL/V2-TA | 2 | |||||
tuf-b1/Rqg31/V2-TA | 1 | |||||
tuf-b1/Rqg31/V14 | 2 | 1221/20 | MZ927447/MZ604954/OK041402 | |||
tuf-b1/GGY/V4 | 1 | 1216/20 | MZ927446/MZ604955/OK041398 | |||
tuf-b1/Rqg50/V4 | 1 | |||||
6. Kovilovo/SRB (44°53′30.8″ N 20°24′58.8″ E) | 0.4% | 15/15 | tuf-d/STOL/V2-TA | 12 | ||
tuf-b1/STOL/V2-TA | 1 | |||||
tuf-b1/Rqg31/V2-TA | 1 | |||||
tuf-b1/Rqg31/V14 | 1 | |||||
7. Lazarevo/SRB (45°25′14.8″ N 20°31′21.2″ E) | 0.1% | 10/12 | tuf-d/STOL/V2-TA | 9 | 1168/20 | MZ927433/MZ604947/OK041388 |
tuf-b1/Rqg31/V2-TA | 1 | |||||
8. Plavi Horizonti/SRB (44°52′08.4″ N 20°15′58.7″ E) | 0.4% | 15/15 | tuf-d/STOL/V2-TA | 2 | ||
tuf-b1/STOL/V2-TA | 12 | |||||
n.a./RTD1/n.a. | 1 | 1177/20 | n.a./MZ604948/n.a. | |||
9. Rimski Šančevi/SRB (45°19′47.0″ N 19°49′10.6″ E) | 10.3% | 15/15 | tuf-d/STOL/V2-TA | 15 | ||
10. Sombor/SRB (45°47′19.0″ N 19°04′33.0″ E) | 0.3% | 12/12 | tuf-d/STOL/V2-TA | 9 | ||
tuf-b1/Rqg31/V2-TA | 1 | |||||
tuf-b1/M5/V14 | 1 | 1746/20 | MZ927453/MZ604960/OK041407 | |||
tuf-b2/RTD6/V23 | 1 | 1744/20 | MZ927434/MZ604961/OK041409 | |||
11. Stari Tamiš/SRB (44°52′31.3″ N 20°45′42.6″ E) | 0.1% | 11/15 2 | tuf-d/STOL/V2-TA | 3 | ||
n.a./STOL/n.a. | 3 | |||||
n.a./RTD3/n.a. | 1 | 1443/20 | n.a./MZ604956/n.a. | |||
n.a./RTD4/n.a. | 1 | 1447/20 | n.a./MZ604957/n.a. | |||
tuf-b1/RTD5/n.a. | 1 | 1453/20 | MZ927435/MZ604958/n.a. | |||
12. # Stepanovićevo/SRB (45°25′22.5″ N 19°40′47.2″ E) | 0.3% | 10/12 | tuf-b1/Rqg31/V2-TA | 4 | 1432/20 | MZ927448/MZ604962/OK041390 |
tuf-b1/Rqg31/V14 | 3 | 1438/20 | MZ927450/MZ604963/OK041404 | |||
tuf-b1/Rpm35/V2-TA | 1 | 1435/20 | MZ927436/MZ604964/OK041391 | |||
tuf-b1/M5/V14 | 2 | 1429/20 | MZ927437/MZ604965/OK041403 | |||
13. Farna/SVK (48°01′18.8″ N 18°31′36.2″ E) | 9.5% | 20/20 | tuf-d/STOL/V2-TA | 20 | 1589/20 | MZ927438/MZ604966/OK041395 |
14. Beli Manastir/CRO (45°49′38.9″ N 18°37′02.2″ E) | 0% | 1/1 | tuf-d/STOL/V2-TA | 1 | ||
15. Novi Jankovci/CRO (45°15′03.0″ N 18°52′39.0″ E) | 0.2% | 15/15 | tuf-d/STOL/V2-TA | 15 | 1512/20 | MZ927439/MZ604967/OK041392 |
16. Dombóvár/HUN (46°23′36.0″ N 18°08′44.3″ E) | 0.1% | 8/8 | tuf-d/STOL/V2-TA | 8 | 1572/20 | MZ927452/MZ604971/OK041394 |
17. Tamási/HUN (46°41′07.5″ N 18°17′34.5″ E) | 0.1% | 13/13 1 | tuf-d/STOL/V2-TA | 7 | ||
tuf-b1/GGY/V14 | 1 | 1547/20 | MZ927440/MZ604968/OK041405 | |||
tuf-b1/Rqg31/V2-TA | 1 | 1566/20 | MZ927451/MZ604969/OK041393 | |||
tuf-b2/RTD6/V23 | 3 | 1562/20 | MZ927441/MZ604970/OK041408 | |||
18. Rutzendorf/AUT (48°12′40.4″ N 16°37′42.9″ E) | 0% | 4/4 | tuf-b1/GGY/V14 | 2 | 1595/20 | MZ927442/MZ604972/OK041406 |
tuf-b1/STOL/n.a. | 2 | 1597/20 | MZ927443/MZ604973/n.a. | |||
19. Bickenbach/DEU | / | 1/1 | tuf-b1/Z187/V4 | 1 | Z187 | MZ927455/MZ604974/OK041400 |
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Ćurčić, Ž.; Kosovac, A.; Stepanović, J.; Rekanović, E.; Kube, M.; Duduk, B. Multilocus Genotyping of ‘Candidatus Phytoplasma solani’ Associated with Rubbery Taproot Disease of Sugar Beet in the Pannonian Plain. Microorganisms 2021, 9, 1950. https://doi.org/10.3390/microorganisms9091950
Ćurčić Ž, Kosovac A, Stepanović J, Rekanović E, Kube M, Duduk B. Multilocus Genotyping of ‘Candidatus Phytoplasma solani’ Associated with Rubbery Taproot Disease of Sugar Beet in the Pannonian Plain. Microorganisms. 2021; 9(9):1950. https://doi.org/10.3390/microorganisms9091950
Chicago/Turabian StyleĆurčić, Živko, Andrea Kosovac, Jelena Stepanović, Emil Rekanović, Michael Kube, and Bojan Duduk. 2021. "Multilocus Genotyping of ‘Candidatus Phytoplasma solani’ Associated with Rubbery Taproot Disease of Sugar Beet in the Pannonian Plain" Microorganisms 9, no. 9: 1950. https://doi.org/10.3390/microorganisms9091950