Metabarcoding Approach for Evaluation of Bacterial Diversity in Soft Rotting Potato Tubers and Corresponding Geocaulospheres
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Marković, SanjaPopović Milovanović, Tatjana
Berić, Tanja
Dimkić, Ivica
Jelušić, Aleksandra
Iličić, Renata
Stanković, Slaviša
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Plant pathogenic bacteria from the genera Pectobacterium and Dickeya in association with potato cause blackleg and tuber soft rot disease. A metabarcoding was used to analyze the microbial communities of soft-rotted tubers and their geocaulospheres. In September 2018, samples collected from the blackleg-infected field (58 ha) in the Bačka region (Serbia) reached 45% disease incidence. Next-generation sequencing Illumina MiSeq platform was used to obtain 16S rRNA sequences from six tested tubers (with and without soft rot symptom) and the surrounding geocaulosphere. Proteobacteria, Bacteroidetes, Firmicutes, and Actinobacteria were present in all samples, with Proteobacteria being the most prevalent, especially in tubers without soft rot symptoms. In all tested samples, species of the Pectobacterium (P. aroidearum, P. atrosepticum, P. carotovorum, and P. polaris) were detected but were more represented in tubers without symptoms. However, the genus Dickeya was at the limit of detection ...or not detected at all. Acinetobacter was the most dominant in tubers with soft rot, while Pseudomonas and Enterobacter were the most abundant in tubers without symptoms. The genera Bacteroides and Dysgonomonas with starch-degradable features were almost exclusively present in soft rotted tubers and their corresponding geocaulospheres. The most represented genera in the geocaulosphere sample associated with no-symptom tubers were Gaiella, Sphingomonas, Sphingobium, Gemmatimonas, and Geminicoccus, which include species with confirmed biocontrol potential. This study indicates that the soft rot maceration process arises due to complex interactions between plant pathogens and other endophytic bacteria.
Source:
Potato Research, 2022Publisher:
- Springer Verlag
Funding / projects:
- Ministry of Education, Science and Technological Development, Republic of Serbia, Grant no. 200053 (University of Belgrade, Institute for Multidisciplinary Research) (RS-200053)
- Ministry of Education, Science and Technological Development, Republic of Serbia, Grant no. 200010 (Institute for Plant Protection and Environment, Belgrade) (RS-200010)
- Ministry of Education, Science and Technological Development, Republic of Serbia, Grant no. 200178 (University of Belgrade, Faculty of Biology) (RS-200178)
DOI: 10.1007/s11540-022-09601-9
ISSN: 1871-4528; 0014-3065
WoS: 000884962400001
Scopus: 2-s2.0-85142188839
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IZBISTY - JOUR AU - Marković, Sanja AU - Popović Milovanović, Tatjana AU - Berić, Tanja AU - Dimkić, Ivica AU - Jelušić, Aleksandra AU - Iličić, Renata AU - Stanković, Slaviša PY - 2022 UR - https://plantarum.izbis.bg.ac.rs/handle/123456789/684 AB - Plant pathogenic bacteria from the genera Pectobacterium and Dickeya in association with potato cause blackleg and tuber soft rot disease. A metabarcoding was used to analyze the microbial communities of soft-rotted tubers and their geocaulospheres. In September 2018, samples collected from the blackleg-infected field (58 ha) in the Bačka region (Serbia) reached 45% disease incidence. Next-generation sequencing Illumina MiSeq platform was used to obtain 16S rRNA sequences from six tested tubers (with and without soft rot symptom) and the surrounding geocaulosphere. Proteobacteria, Bacteroidetes, Firmicutes, and Actinobacteria were present in all samples, with Proteobacteria being the most prevalent, especially in tubers without soft rot symptoms. In all tested samples, species of the Pectobacterium (P. aroidearum, P. atrosepticum, P. carotovorum, and P. polaris) were detected but were more represented in tubers without symptoms. However, the genus Dickeya was at the limit of detection or not detected at all. Acinetobacter was the most dominant in tubers with soft rot, while Pseudomonas and Enterobacter were the most abundant in tubers without symptoms. The genera Bacteroides and Dysgonomonas with starch-degradable features were almost exclusively present in soft rotted tubers and their corresponding geocaulospheres. The most represented genera in the geocaulosphere sample associated with no-symptom tubers were Gaiella, Sphingomonas, Sphingobium, Gemmatimonas, and Geminicoccus, which include species with confirmed biocontrol potential. This study indicates that the soft rot maceration process arises due to complex interactions between plant pathogens and other endophytic bacteria. PB - Springer Verlag T2 - Potato Research T1 - Metabarcoding Approach for Evaluation of Bacterial Diversity in Soft Rotting Potato Tubers and Corresponding Geocaulospheres DO - 10.1007/s11540-022-09601-9 ER -
@article{ author = "Marković, Sanja and Popović Milovanović, Tatjana and Berić, Tanja and Dimkić, Ivica and Jelušić, Aleksandra and Iličić, Renata and Stanković, Slaviša", year = "2022", abstract = "Plant pathogenic bacteria from the genera Pectobacterium and Dickeya in association with potato cause blackleg and tuber soft rot disease. A metabarcoding was used to analyze the microbial communities of soft-rotted tubers and their geocaulospheres. In September 2018, samples collected from the blackleg-infected field (58 ha) in the Bačka region (Serbia) reached 45% disease incidence. Next-generation sequencing Illumina MiSeq platform was used to obtain 16S rRNA sequences from six tested tubers (with and without soft rot symptom) and the surrounding geocaulosphere. Proteobacteria, Bacteroidetes, Firmicutes, and Actinobacteria were present in all samples, with Proteobacteria being the most prevalent, especially in tubers without soft rot symptoms. In all tested samples, species of the Pectobacterium (P. aroidearum, P. atrosepticum, P. carotovorum, and P. polaris) were detected but were more represented in tubers without symptoms. However, the genus Dickeya was at the limit of detection or not detected at all. Acinetobacter was the most dominant in tubers with soft rot, while Pseudomonas and Enterobacter were the most abundant in tubers without symptoms. The genera Bacteroides and Dysgonomonas with starch-degradable features were almost exclusively present in soft rotted tubers and their corresponding geocaulospheres. The most represented genera in the geocaulosphere sample associated with no-symptom tubers were Gaiella, Sphingomonas, Sphingobium, Gemmatimonas, and Geminicoccus, which include species with confirmed biocontrol potential. This study indicates that the soft rot maceration process arises due to complex interactions between plant pathogens and other endophytic bacteria.", publisher = "Springer Verlag", journal = "Potato Research", title = "Metabarcoding Approach for Evaluation of Bacterial Diversity in Soft Rotting Potato Tubers and Corresponding Geocaulospheres", doi = "10.1007/s11540-022-09601-9" }
Marković, S., Popović Milovanović, T., Berić, T., Dimkić, I., Jelušić, A., Iličić, R.,& Stanković, S.. (2022). Metabarcoding Approach for Evaluation of Bacterial Diversity in Soft Rotting Potato Tubers and Corresponding Geocaulospheres. in Potato Research Springer Verlag.. https://doi.org/10.1007/s11540-022-09601-9
Marković S, Popović Milovanović T, Berić T, Dimkić I, Jelušić A, Iličić R, Stanković S. Metabarcoding Approach for Evaluation of Bacterial Diversity in Soft Rotting Potato Tubers and Corresponding Geocaulospheres. in Potato Research. 2022;. doi:10.1007/s11540-022-09601-9 .
Marković, Sanja, Popović Milovanović, Tatjana, Berić, Tanja, Dimkić, Ivica, Jelušić, Aleksandra, Iličić, Renata, Stanković, Slaviša, "Metabarcoding Approach for Evaluation of Bacterial Diversity in Soft Rotting Potato Tubers and Corresponding Geocaulospheres" in Potato Research (2022), https://doi.org/10.1007/s11540-022-09601-9 . .