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Supplemental Information

Figure 1. Schematic of sound waves load apparatus

Note: (a) sound waves source; (b) sound waves transmission conductor; (c) speaker; (d) ultraviolet light; (e) beaker; (f) metal case; (g) sound-absorbing material; (h) magnetic stirrer.

DOI: 10.7287/peerj.preprints.2821v1/supp-1

Figure 2. Influence of acoustic exposure on growth of E. coli K12 during different growth stages

Note: E. coli K-12 exposed to acoustic field with 8 kHz frequency and 85 dB intensity level acted as treatment group. Samples without sound exposure served as a control group.

DOI: 10.7287/peerj.preprints.2821v1/supp-2

Figure 3. Correlation analysis of two samples’ expressed genes, based on the reads’ number of per gene

Note: the abscissa represents the log2 fold-change of the reads’ number in the treatment group, and the ordinate represents the log2 fold-change of reads’ number in the control group. Correlation coefficients (R2) are 0.905, 0.959, 0.94 and 0.923, respectively.

DOI: 10.7287/peerj.preprints.2821v1/supp-3

Figure 4. The hypothesis model of acoustic stress response in E. coli based on metabolic networks and energy metabolism

DOI: 10.7287/peerj.preprints.2821v1/supp-4

Table 1. The data quality of transcriptome sequencing for gene expression

Note: C1 represents 6 hours sample without acoustic stimulation, C2 represents 12 hours sample without acoustic stimulation, C3 represents 24 hours sample without acoustic stimulation, C4 represents 36 hours sample without acoustic stimulation, S1 represents 6 hours sample exposed to acoustic field with 8 kHz frequency and 85 dB intensity level, S2 represents 12 hours sample exposed to acoustic field, S3 represents 24 hours sample exposed to acoustic field, S4 represents 6 hours sample exposed to acoustic field. Total gene count is the total gene number of this species. Gene_count is the number of genes expressed in the sample and the proportion to the total gene (reads>0, indicating that each gene has at least 1 read support, and so on).

DOI: 10.7287/peerj.preprints.2821v1/supp-5

Table 2. The data quality of transcriptome sequencing for mapping

Note: C1 represents 6 hours sample without acoustic stimulation, C2 represents 12 hours sample without acoustic stimulation, C3 represents 24 hours sample without acoustic stimulation, C4 represents 36 hours sample without acoustic stimulation, S1 represents 6 hours sample exposed to acoustic field with 8 kHz frequency and 85 dB intensity level, S2 represents 12 hours sample exposed to acoustic field, S3 represents 24 hours sample exposed to acoustic field, S4 represents 6 hours sample exposed to acoustic field. Input is the number of read. Mapped is the number of Reads match to genome. Multiple_alignments is the Reads number of multiple alignments. Uniq_mapped is the Reads number of uniq mapped.

DOI: 10.7287/peerj.preprints.2821v1/supp-6

Table 3. The effects of acoustic exposure on E. coli K12 gene expression during different growth stages

Note: E.coli K-12 exposed to acoustic field with 8 kHz frequency and 85 dB intensity level acted as treatment group. Samples without sound exposure served as a control group.

DOI: 10.7287/peerj.preprints.2821v1/supp-7

Table 4. The effects of sound exposure on metabolic network structures in E. coli K12

Note: E.coli K-12 exposed to acoustic field with 8 kHz frequency and 85 dB intensity level acted as treatment group. Samples without sound exposure served as a control group. The metabolic pathway presented in this table arrived to the significantly differences (corrected-Pvalue<0.05) , which below the level is not shown. There are 179 down-regulated genes at 6 hour and 37 down-regulated genes at 12 hour, some of them are found in the pathways without significant differences(corrected-Pvalue>0.05), while others do not involve in these pathways. Term is the functional description of this pathway in KEGG database. ID is the unique number of Pathway in KEGG database.

DOI: 10.7287/peerj.preprints.2821v1/supp-8

Table 5. The effects of sound exposure on the energy metabolic pattern in E. coli K12

Note: E.coli K-12 exposed to acoustic field with 8 kHz frequency and 85 dB intensity level acted as treatment group. Samples without sound exposure served as a control group. The metabolic pathway presented in this table arrived to the significantly differences(corrected-Pvalue<0.05) , which below the level is not shown. There are 179 down-regulated genes at 6 hour and 37 down-regulated genes at 12 hour, some of them are found in the pathways without significant differences(corrected-Pvalue>0.05), while others do not involve in these pathways. Term is the functional description of this pathway in KEGG database. ID is the unique number of Pathway in KEGG database.

DOI: 10.7287/peerj.preprints.2821v1/supp-9

Additional Information

Competing Interests

The authors declare that they have no competing interests.

Author Contributions

Shaobin Gu conceived and designed the experiments, contributed reagents/materials/analysis tools, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper.

Suyu Qiao performed the experiments, analyzed the data, wrote the paper, prepared figures and/or tables.

Ying Wu conceived and designed the experiments, performed the experiments, reviewed drafts of the paper.

Data Deposition

The following information was supplied regarding data availability:

The raw data has been supplied as a supplementary file.

Funding

This work was supported by National Natural Science Foundation of China (Grant No. U1304307) and the Young Core Instructor Foundation from the Education Commission of Henan Province, China (Grant No. 2014GGJS-056). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.


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