Abstract
Microbial community profiling of samples differing in a specific ecological function, i.e., soilborne plant disease suppression, can be used to mark, recover, and ultimately identify the bacteria responsible for that specific function. Previously, several terminal restriction fragments (TRF) of 16S rRNA genes were statistically associated with damping-off disease suppression. This work presents the development of sequence-based TRF length polymorphism (T-RFLP)-derived molecular markers to direct the identification and isolation of novel bacteria involved in damping-off pathogen suppression. Multiple sequences matching TRF M139 and M141 were cloned and displayed identity to multiple database entries in the genera incertae sedis of the Burkholderiales. Sequences matching TRF M148, in contrast, displayed greater sequence diversity. A sequence-directed culturing strategy was developed using M139- and M141-derived markers and media reported to be selective for the genera identified within this group. Using this approach, we isolated and identified novel Mitsuaria and Burkholderia species with high levels of sequence similarity to the targeted M139 and M141 TRF, respectively. As predicted, these Mitsuaria and Burkholderia isolates displayed the targeted function by reducing fungal and oomycete plant pathogen growth in vitro and reducing disease severity in infected tomato and soybean seedlings. This work represents the first successful example of the use of T-RFLP-derived markers to direct the isolation of microbes with pathogen-suppressing activities, and it establishes the power of low-cost molecular screening to identify and direct the recovery of functionally important microbes, such as these novel biocontrol strains.
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Claims 10
Claim · model-written summary
Sequences matching TRF M139 and M141 resembled Burkholderiales database entries.
Not reportedTaxon
Verbatim
e0“Multiple sequences matching TRF M139 and M141 were cloned and displayed identity to multiple database entries in the genera incertae sedis of the Burkholderiales.”
t0“Soil Bacteria: Sequence-Directed Isolation of Novel Bacteria Contributing to Soilborne Plant Disease Suppression”
Claim · model-written summary
Sequences matching TRF M148 had greater diversity.
Not reportedTaxon
Verbatim
e0“Sequences matching TRF M148, in contrast, displayed greater sequence diversity.”
t0“Soil Bacteria: Sequence-Directed Isolation of Novel Bacteria Contributing to Soilborne Plant Disease Suppression”
Claim · model-written summary
Sequence-directed culturing recovered Mitsuaria species resembling M139.
Verbatim
e0“Using this approach, we isolated and identified novel Mitsuaria and Burkholderia species with high levels of sequence similarity to the targeted M139 and M141 TRF, respectively.”
Claim · model-written summary
Sequence-directed culturing recovered Burkholderia species resembling M141.
Verbatim
e0“Using this approach, we isolated and identified novel Mitsuaria and Burkholderia species with high levels of sequence similarity to the targeted M139 and M141 TRF, respectively.”
Claim · model-written summary
Mitsuaria isolates reduced fungal and oomycete pathogen growth in vitro.
- Interactor
- MitsuariaRoseatelese0biocontrol_agent
- Outcome
- fungal and oomycete plant pathogen growthe0
- Direction
- reducinge0
Not reportedTaxon
Verbatim
e0“these Mitsuaria and Burkholderia isolates displayed the targeted function by reducing fungal and oomycete plant pathogen growth in vitro”
Claim · model-written summary
Burkholderia isolates reduced fungal and oomycete pathogen growth in vitro.
- Interactor
- Burkholderia
Burkholderiae0biocontrol_agent - Outcome
- fungal and oomycete plant pathogen growthe0
- Direction
- reducinge0
Not reportedTaxon
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“these Mitsuaria and Burkholderia isolates displayed the targeted function by reducing fungal and oomycete plant pathogen growth in vitro”
Claim · model-written summary
Mitsuaria isolates reduced disease severity in infected tomato seedlings.
- Taxon
- tomato
Solanum lycopersicume0 - Treatment
- Mitsuariae0
- Interactor
- fungal and oomycete plant pathogene0pathogen
- Second interactor
- MitsuariaRoseatelese0biocontrol_agent
- Outcome
- disease severitye0
- Direction
- reducinge0
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“these Mitsuaria and Burkholderia isolates displayed the targeted function by reducing fungal and oomycete plant pathogen growth in vitro and reducing disease severity in infected tomato and soybean seedlings.”
Claim · model-written summary
Mitsuaria isolates reduced disease severity in infected soybean seedlings.
- Taxon
- soybean
Glycine maxe0 - Treatment
- Mitsuariae0
- Interactor
- fungal and oomycete plant pathogene0pathogen
- Second interactor
- MitsuariaRoseatelese0biocontrol_agent
- Outcome
- disease severitye0
- Direction
- reducinge0
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“these Mitsuaria and Burkholderia isolates displayed the targeted function by reducing fungal and oomycete plant pathogen growth in vitro and reducing disease severity in infected tomato and soybean seedlings.”
Claim · model-written summary
Burkholderia isolates reduced disease severity in infected tomato seedlings.
- Taxon
- tomatoSolanum lycopersicume0
- Treatment
- Burkholderiae0
- Interactor
- fungal and oomycete plant pathogene0pathogen
- Second interactor
- BurkholderiaBurkholderiae0biocontrol_agent
- Outcome
- disease severitye0
- Direction
- reducinge0
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“these Mitsuaria and Burkholderia isolates displayed the targeted function by reducing fungal and oomycete plant pathogen growth in vitro and reducing disease severity in infected tomato and soybean seedlings.”
Claim · model-written summary
Burkholderia isolates reduced disease severity in infected soybean seedlings.
- Taxon
- soybeanGlycine maxe0
- Treatment
- Burkholderiae0
- Interactor
- fungal and oomycete plant pathogene0pathogen
- Second interactor
- BurkholderiaBurkholderiae0biocontrol_agent
- Outcome
- disease severitye0
- Direction
- reducinge0
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“these Mitsuaria and Burkholderia isolates displayed the targeted function by reducing fungal and oomycete plant pathogen growth in vitro and reducing disease severity in infected tomato and soybean seedlings.”
The same questions in other papers
Roseateles · disease · Solanum lycopersicum (tomato)Results agree
1 paper in the same direction as this paper
- positive
Burkholderia · disease · Solanum lycopersicum (tomato)Results agree
2 papers in the same direction as this paper
- positive
- positive
Claims are grouped by organism, treatment and what was measured or targeted. A paper counts as positive when any of its claims in the group is positive.