Characterization of Leaf Transcriptome of Grafted Tomato Seedlings after Rhizospheric Inoculation with Azospirillum baldaniorum or Paraburkholderia graminis
, Matteo Buti 2, Alessia Flore 1, Roberto Gatti 1, Caterina Morcia 3, Valeria Terzi 3, Domenico Ronga 4, Lionel Moulin 5, Enrico Francia 1,* and Justyna Anna Milc 1
Round 1
Reviewer 1 Report
Lines 105-109: the origin and repository of the Azospirillum strain 245 is incorrectly reported “…belonging to the CREA Research Centre…”. See Dos Santos Ferreira et al., Int. J. Syst. Evol. Microbiol. DOI 10.1099/ijsem.0.004517. The above isolate has a well known international history and the origin should be correctly reported.
All isolates……. are deposited in the collection of Biological Resource Centre Johanna Döbereiner (WDC364), Embrapa Agrobiologia, Seropedica, Rio de Janeiro-Brazil (www.embrapa.br/agrobiologia/crb-jd). Sp245T is also deposited in the Bacterial Culture Collection at the Microbiology and Agricultural Zoology (WDCM31), Institute INTA-IMYZA, Castelar, Buenos Aires, Argentina, and in the Collection of Rhizosphere Microorganisms of the Institute of Biochemistry and Physiology of Plants and Microorganisms (WDCM1021), Russian Academy of Sciences (IBPPM RAS), Prospekt Entuziastov, Saratov, Russia (http://collection.ibppm.ru/).
Line 127 : aerobically incubated ?
Line 128 : rhizosphere soil
Line 164: Gene ontology (GO); delete “gene ontology in the following line
Line 198: colonization by culturable aerobic rhizobacteria
Line 199 and 200: rhizosphere soil
Line 386: Bacillus licheniformis
Author Response
See the attached file.
Author Response File: 
Author Response.pdf
Reviewer 2 Report
Figure 2: can be improved (font size).
Both figures on page 7 and 8 are labeled "figure 2" . Figure 3 (font size to be improved)
Phrase line 424-430 does not seem to be in the right place-reformulate.
Author Response
See the attached file.
Author Response File: Author Response.pdf
Reviewer 3 Report
Characterization of leaf transcriptome of grafted tomato seedlings after rhizospheric inoculation with Azospirillum baldaniorum or Paraburkholderia graminis
ID: 1916886
Congratulations, excellent job.
Specific comments.
Line 36. Solanum lycopersicum L, delete L.
Line 41. If abbreviate tons, abbreviate hectares as well.
Line 56. pea, maize, tomato, lettuce, wheat… add scientific names.
Line 63. In a recent study, Azospirillum baldaniorum Sp245 was demonstrated to alleviate the adverse effects of drought stress in purple basil [10]. However, the reference is from 2011. Change the wording of the sentence.
Line 64. in purple basil. Add scientific name.
Line 83. Azospirillum baldaniorum, abbreviate the scientific name: A. baldaniorum.
Line 94. Fusarium oxysporum f.sp. lycopersici… separate f. sp.
Line 95… this experiment based on our previous experiments…Do your best not to repeat the same word in the same sentence or paragraph.
Lines 110 and 111. Tryptone Soya Yeast Extract Broth…Why do the authors write nutrient medium with capital letters?
Line 112. 24 hours… 4 minutes. Change to 24 h and 4 min.
Line 118. How many seedlings were inoculated per treatment?
Line 124.
Line 126. (Liofilchem 126 S.r.l., Teramo, Italy), delete, already registered on line 111.
Line 128. colony-forming units (CFU), delete colony-forming units, already registered on lines 108-109.
Line 133. (control, inoculated with AB)… Homogenize, line 124 Control with a capital letter and line 133 with a lower case.
Line 189. a housekeeping gene in tomato [17,32] was used. Change to a housekeeping gene in tomato was used [17,32].
Line 215. are reported.ID…separate reported from ID.
Line 277. Explain the meaning of ROS.
Line 316. plant growth-promoting rhizobacteria or plant growth promoting rhizobacteria in line 60?
Line 321. see e.g., [35]), remove the comma after g.
Lines 323-325. I am confused with the information on these lines, are these results relevant to the research? Clarify and correct if applicable.
Line 386. Bacillus licheniformis in italics.
Line 389. Change plant growth promoting rhizobacteria by PGPR.
Line 394. Explain the meaning of ROS.
Line 398. Ascorbate oxidase (AO) is not the first time it has been mentioned.
Lines 409-410. Change with plant growth promoting rhizobacteria (PGPR) by PGPR.
Line 420. Phytophthora infestans abbreviate.
Line 435. Huang et al. [64], respectively. Add comma after [64], respectively.
Line 438. Use the journal nomenclature in (Zhao et al. 2014).
Line 559 and 629. There are errors in some references where the scientific names are not written properly, for example: Azospirillum Brasilense.
Author Response
See the attached file.
Reviewer 4 Report
A large number of publications have shown how bacteria can promote plant growth, affect their metabolism and increase stress resistance. But interactions between plants and bacteria require an integrated approach, including the study of various mechanisms and responses. And such data on the mechanisms can now be obtained by introducing transcriptomics and metabolomics methods.
Some questions and comments on the reviewed work are below.
What is the reason for the choice of the concentration of microorganisms (107 CFU/ml) and the dose (1 ml) for plant treatment?
Why was one colony used for processing plants? How genetically stable is the strain? Is there a possibility of treatment of microorganisms resulting from mutation with properties different from the parent strain? Was this aspect controlled?
Titer of microorganisms in peat before inoculation (initial titer)?
When evaluating bacterization, how was it determined that it was PG and AB? According to the presented data, it is impossible to unequivocally assert colonization by inoculated microorganisms.
At the time of treatment, the titer of introduced microorganisms was 107 CFU per 60 g of soil in a vessel = 1.7*105 CFU/g, and after six days it was two orders of magnitude more than 2.5*107 CFU/g. Due to what so quickly, isn't it a mistake?
Probably, it was necessary to introduce the studied cultures in such a way that initially they were on the same level with the native microflora. And so there is a discrepancy in the material balance of microorganisms in the soil peat.
Are the microorganisms used endophytes ?
According to the experimental conditions, there is no stress for plants (it is not created), and in the case of AB processing, we see the expression of genes involved in reactions to oxidative stress. Is AB bacteria treatment stressful for plants?
Fig. 2 is a hard-to-read graph. If possible, increase the font and the graph itself.
Fig 3 is listed as Fig 2.
In general, this is a very good job, which is done at a modern high level.
Author Response
See the attached file.
Author Response File: Author Response.pdf
