Transcriptomic Analysis of Salt Stress Response in Pleurotus ostreatus

Round 1

Reviewer 1 Report

In this manuscript (horticulturae-2051657) entitled "This study was conducted to confirm the expression patterns of genes involved in stress resistance by comparing the expression patterns of genes expressed after sodium chloride treatment in Pleurotus ostreatus (PO) cultivation." submitted to Horticulturae, Ha Young Pyeon and colleagues checked different gene expres-sions for the untreated group and the sodium chloride 1% and 2% treated group in PO cultivation and concluded that sodium chloride ultimately inhibits growth by inhibiting the formation of the skeleton constituting the mycelium and the physiological activity within the cell.. This study is an interesting work, I have however several concerns that may be addressed to improve the quality of the work.

1. Figure 1, mycelial growth of control and sodium chloride treated groups at 0 day should be included.

2. Figure 2, Pleurotus ostreatus should be italized in the legend.

3. Table 4, gene names appeared in the column of gene symbol should be italized.

4. Figure 4, difference significance should be analyzed and labeled.

5. Title is too long, please use a concise title. For instance: transcriptomic analysis of salt stress response in Pleurotus ostreatus.

6. Full names of the abbreviations DEG, HTP1, PDA, and qRT-PCR should be spelt out at its first appearance in this article.

7. Please double-check the reference list. For instance, Google scholar should be removed.

Author Response

In this manuscript (horticulturae-2051657) entitled "This study was conducted to confirm the expression patterns of genes involved in stress resistance by comparing the expression patterns of genes expressed after sodium chloride treatment in Pleurotus ostreatus (PO) cultivation." submitted to Horticulturae, Ha Young Pyeon and colleagues checked different gene expres-sions for the untreated group and the sodium chloride 1% and 2% treated group in PO cultivation and concluded that sodium chloride ultimately inhibits growth by inhibiting the formation of the skeleton constituting the mycelium and the physiological activity within the cell.. This study is an interesting work, I have however several concerns that may be addressed to improve the quality of the work.  

The reviewer's comments were marked in red on the manuscript.

1. Figure 1, mycelial growth of control and sodium chloride treated groups at 0 day should be included.  :  We added figure at 0day figure.
2. Figure 2,Pleurotus ostreatusshould be italized in the legend. : We edited our manuscript.
3. Table 4,gene names appeared in the column of gene symbol should be italized.  : We edited our manuscript.
4. Figure 4, difference significance should be analyzed and labeled. :  We edited our manuscript.
5. Title is too long, please use a concise title. For instance: transcriptomic analysis of salt stress response in Pleurotus ostreatus.  We edited our manuscript title : Transcriptomic analysis of salt stress response in Pleurotus ostreatus mycelia.
6. Full names of the abbreviations DEG, HTP1, PDA, and qRT-PCR should be spelt out at its first appearance in this article. We edited our manuscript
7. Please double-check the reference list. For instance, Google scholar should be removed. We deleted google scholar 

Reviewer 2 Report

The manuscript “Comparative analysis of gene expression patterns of oyster mushroom mycelium according to sodium chloride concentration” is devoted to the study of changes in differential gene expression in the edible mashroom Pleurotus ostreatus under salt stress. The work was done at a high methodological level. But in view of the remarks listed below, this article cannot be published in the journal Horticulturae in its current form, and a major revision by the authors is required.

Mycelial growth on the PDA medium was 80.0 mm in the non-treated group and 78.7, 45.4, 32.3 and 25.5 mm in the 0.5% 1.0% 1.5% and 2.0% NaCl treatment groups on the 9th day of growth, respectively.

Compared to the untreated group, there was a decrease in growth by 1.3, 34.6, 47.7 and 54.5 mm in the 0.5%, 1.0%, 1.5% and 2.0% NaCl treatment groups, respectively.

In two sentences, the numbers indicate the same thing. In fact, it's a repeat.

The amount of mycelial growth for the untreated group and 0.5% NaCl treatment group were the same, but the amount of mycelial growth started to decrease in the 1.0% NaCl treatment group, and the amount of growth continued to decrease as the NaCl concentration 135 was increased to 1.5% and 2.0%.

Although the amount of mycelial growth for the untreated group and 0.5% NaCl treatment group was comparable, in the 1.0% NaCl treatment group, the mycelial growth began to decrease and continued to decrease as the con concentration of NaCl was increased to 1.5% and 2.0%.

Repeat again. These suggestions do not provide any additional information to what has already been said above. As well as Fig. 1 and Table, for some reason called Table 3, which may be removed.

Lines 157–162: Where did the 400 downregulated transcripts come from when there are only 275 downregulated transcripts?

Lines 164, 174: Table 4? The name of the table does not correspond to its content. It is completely incomprehensible what the numerical values in the table mean.

In addition, because the sea consists of mostly NaCl, CaCl2, and MgCl2, experiments using various salts which will include comparison experiments on stress responses at various growth stages from salt treatment after fungal scraping and post-planting for the generation of fruiting bodies [29].

The sentence is missing a verb. It is not at all clear what relation it has to the discussion of the results obtained.

The main results of the work—transcriptomic and DEG analysis and growth rate at different salt concentrations—are not discussed in the Discussion section.

 

 

Author Response

The manuscript “Comparative analysis of gene expression patterns of oyster mushroom mycelium according to sodium chloride concentration” is devoted to the study of changes in differential gene expression in the edible mashroom Pleurotus ostreatus under salt stress. The work was done at a high methodological level. But in view of the remarks listed below, this article cannot be published in the journal Horticulturae in its current form, and a major revision by the authors is required.

Mycelial growth on the PDA medium was 80.0 mm in the non-treated group and 78.7, 45.4, 32.3 and 25.5 mm in the 0.5% 1.0% 1.5% and 2.0% NaCl treatment groups on the 9th day of growth, respectively. 

Compared to the untreated group, there was a decrease in growth by 1.3, 34.6, 47.7 and 54.5 mm in the 0.5%, 1.0%, 1.5% and 2.0% NaCl treatment groups, respectively.

In two sentences, the numbers indicate the same thing. In fact, it's a repeat. 

The amount of mycelial growth for the untreated group and 0.5% NaCl treatment group were the same, but the amount of mycelial growth started to decrease in the 1.0% NaCl treatment group, and the amount of growth continued to decrease as the NaCl concentration 135 was increased to 1.5% and 2.0%.

Although the amount of mycelial growth for the untreated group and 0.5% NaCl treatment group was comparable, in the 1.0% NaCl treatment group, the mycelial growth began to decrease and continued to decrease as the con concentration of NaCl was increased to 1.5% and 2.0%.

Repeat again. These suggestions do not provide any additional information to what has already been said above. As well as Fig. 1 and Table, for some reason called Table 3, which may be removed. :  We have completed the revision of this thesis in response to the reviewer's point.

Lines 157–162: Where did the 400 downregulated transcripts come from when there are only 275 downregulated transcripts? :  We have completed the revision of this thesis in response to the reviewer's point.

Lines 164, 174: Table 4? The name of the table does not correspond to its content. It is completely incomprehensible what the numerical values in the table mean. : : We have completed the revision of this thesis in response to the reviewer's point.

In addition, because the sea consists of mostly NaCl, CaCl2, and MgCl2, experiments using various salts which will include comparison experiments on stress responses at various growth stages from salt treatment after fungal scraping and post-planting for the generation of fruiting bodies [29].

: We have completed the revision of this thesis in response to the reviewer's point.

The sentence is missing a verb. It is not at all clear what relation it has to the discussion of the results obtained.

The main results of the work—transcriptomic and DEG analysis and growth rate at different salt concentrations—are not discussed in the Discussion section. :  We fully explained the expression and function of genes in the discussion section of this paper regarding the reviewer's point. Since we were interested in the expression of the actually identified genes rather than the number of genes expressed in DEGs, we focused on the genes and proceeded with the description. Insufficient explanations will be reflected in the further study.

Round 2

Reviewer 1 Report

Authors have addresses my concerns in the revision. This revised manuscript looks much improved. 

Reviewer 2 Report

All comments made have been taken into account. The manuscript may be recommended for publication.