Metabarcoding Approach for Evaluation of Bacterial Diversity in Soft Rotting Potato Tubers and Corresponding Geocaulospheres
Authorized Users Only
2022
Authors
Marković, Sanja
Popović, Tatjana

Berić, Tanja
Dimkić, Ivica
Jelušić, Aleksandra
Iličić, Renata
Stanković, Slaviša
Article (Published version)

Metadata
Show full item recordAbstract
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 feld
(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 li...mit of detection or not detected at all. Acinetobacter was the most dominant
in tubers with soft rot, while Pseudomonas and Enterobacter were the most abun dant 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 confrmed biocontrol potential. This study indicates that the soft rot maceration process
arises due to complex interactions between plant pathogens and other endophytic
bacteria.
Keywords:
Dickeya / microbial communities / PectobacteriumSource:
Potato Research, 2022, 1-18Publisher:
- Springer
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)
Collections
Institution/Community
Institut za multidisciplinarna istraživanjaTY - JOUR AU - Marković, Sanja AU - Popović, Tatjana AU - Berić, Tanja AU - Dimkić, Ivica AU - Jelušić, Aleksandra AU - Iličić, Renata AU - Stanković, Slaviša PY - 2022 UR - http://rimsi.imsi.bg.ac.rs/handle/123456789/1914 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 feld (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 abun dant 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 confrmed 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 T2 - Potato Research T1 - Metabarcoding Approach for Evaluation of Bacterial Diversity in Soft Rotting Potato Tubers and Corresponding Geocaulospheres EP - 18 SP - 1 DO - 10.1007/s11540-022-09601-9 ER -
@article{ author = "Marković, Sanja and Popović, 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 feld (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 abun dant 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 confrmed 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", journal = "Potato Research", title = "Metabarcoding Approach for Evaluation of Bacterial Diversity in Soft Rotting Potato Tubers and Corresponding Geocaulospheres", pages = "18-1", doi = "10.1007/s11540-022-09601-9" }
Marković, S., Popović, 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., 1-18. https://doi.org/10.1007/s11540-022-09601-9
Marković S, Popović 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;:1-18. doi:10.1007/s11540-022-09601-9 .
Marković, Sanja, Popović, 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):1-18, https://doi.org/10.1007/s11540-022-09601-9 . .