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Acetic acid is superior to formic acid as an acidifier in sub-nanogram and single cell proteomics

ABSTRACT: This work follows on Battellino et al., 2023 which described the use of 0.5% acetic acid in shotgun proteomics providing additional relative signal over 0.1% formic acid. In this study we performed repeated experiments with K562 serial dilutions down to 20 picogram on column with alternating between these two buffers on an EasyNLC 1200 instrument. We consistently obtain higher numbers of precursors, peptides and proteins when this is the only alteration in the study. In addition we find that with the extra signal obtained when using acetic acid, we can reduce the cycle time of each experiment allowing us to obtain more measurements across each peak at concentrations as low as 100 picogram peptide load on column using a default diaPASEF method on the TIMSTOF SCP. These experiments were repeated with single cells from two cancer cell lines with the same results.

INSTRUMENT(S): timsTOF SCP

ORGANISM(S): Homo Sapiens (ncbitaxon:9606)

SUBMITTER: Benjamin C Orsburn Benjamin E. Wolfe

PROVIDER: MSV000092563 | MassIVE | Tue Aug 01 05:57:00 BST 2023

SECONDARY ACCESSION(S): PXD044262

REPOSITORIES: MassIVE

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Project description:External application of acetic acid has been recently reported to enhance the survival to drought in plants such as Arabidopsis, rapeseed, maize, rice and wheat, but the effects of acetic acid application on increased drought tolerance in woody plants such as a tropical crop “cassava” remain elusive. A molecular understanding of acetic acid-induced drought avoidance in cassava will contribute to the development of technology that can be used to enhance drought tolerance without resorting to transgenic technology or advancements in cassava cultivation. In the present study, morphological, physiological and molecular responses to drought were analyzed in cassava after the treatment with acetic acid. Results indicated that the acetic acid-treated cassava plants had a higher level of drought avoidance than water-treated, control plants. Specifically, higher leaf relative water content, and chlorophyll and carotenoid levels were observed as soils dried out during the drought treatment. Leaf temperatures in acetic acid-treated cassava plants were higher relative to leaves on plants pretreated with water and the increase of ABA content was observed in leaves of acetic acid-treated plants, suggesting that stomatal conductance and the transpiration rate in leaves of acetic acid-treated plants decreased to maintain relative water contents and avoid drought. Transcriptome analysis revealed that the acetic acid treatment increased the expression of ABA signaling-related genes, such as OPEN STOMATA 1　(OST1) and protein phosphatase 2C; as well as drought response and tolerance-related genes, such as outer membrane tryptophan-rich sensory protein (TSPO), and heat shock proteins. Collectively, the external application of acetic acid enhances drought avoidance in cassava through the upregulation of ABA signaling pathway genes and several stress response- and tolerance-related genes. These data support the idea that adjustments of the acetic acid application to plants is useful to enhance drought tolerance in order to minimize the growth inhibition in the agricultural field.

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Acetic acid is superior to formic acid as an acidifier in sub-nanogram and single cell proteomics

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