The protein interactome of the citrus Huanglongbing pathogen Candidatus Liberibacter asiaticus
Abstract The bacterium Candidatus Liberibacter asiaticus (CLas) causes citrus Huanglongbing disease. Our understanding of the pathogenicity and biology of this microorganism remains limited because CLas has not yet been cultivated in artificial media. Its genome is relatively small and encodes appro...
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| Format: | Article |
| Language: | English |
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Nature Portfolio
2023-11-01
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| Series: | Nature Communications |
| Online Access: | https://doi.org/10.1038/s41467-023-43648-7 |
| _version_ | 1797414573196705792 |
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| author | Erica W. Carter Orlene Guerra Peraza Nian Wang |
| author_facet | Erica W. Carter Orlene Guerra Peraza Nian Wang |
| author_sort | Erica W. Carter |
| collection | DOAJ |
| description | Abstract The bacterium Candidatus Liberibacter asiaticus (CLas) causes citrus Huanglongbing disease. Our understanding of the pathogenicity and biology of this microorganism remains limited because CLas has not yet been cultivated in artificial media. Its genome is relatively small and encodes approximately 1136 proteins, of which 415 have unknown functions. Here, we use a high-throughput yeast-two-hybrid (Y2H) screen to identify interactions between CLas proteins, thus providing insights into their potential functions. We identify 4245 interactions between 542 proteins, after screening 916 bait and 936 prey proteins. The false positive rate of the Y2H assay is estimated to be 2.9%. Pull-down assays for nine protein-protein interactions (PPIs) likely involved in flagellar function support the robustness of the Y2H results. The average number of PPIs per node in the CLas interactome is 15.6, which is higher than the numbers previously reported for interactomes of free-living bacteria, suggesting that CLas genome reduction has been accompanied by increased protein multi-functionality. We propose potential functions for 171 uncharacterized proteins, based on the PPI results, guilt-by-association analyses, and comparison with data from other bacterial species. We identify 40 hub-node proteins, including quinone oxidoreductase and LysR, which are known to protect other bacteria against oxidative stress and might be important for CLas survival in the phloem. We expect our PPI database to facilitate research on CLas biology and pathogenicity mechanisms. |
| first_indexed | 2024-03-09T05:35:20Z |
| format | Article |
| id | doaj.art-2ba09f4826f4490c868abc3d350b6f82 |
| institution | Directory Open Access Journal |
| issn | 2041-1723 |
| language | English |
| last_indexed | 2024-03-09T05:35:20Z |
| publishDate | 2023-11-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Nature Communications |
| spelling | doaj.art-2ba09f4826f4490c868abc3d350b6f822023-12-03T12:28:59ZengNature PortfolioNature Communications2041-17232023-11-0114111210.1038/s41467-023-43648-7The protein interactome of the citrus Huanglongbing pathogen Candidatus Liberibacter asiaticusErica W. Carter0Orlene Guerra Peraza1Nian Wang2Citrus Research and Education Center, Institute of Food and Agricultural Sciences, University of FloridaCitrus Research and Education Center, Institute of Food and Agricultural Sciences, University of FloridaCitrus Research and Education Center, Institute of Food and Agricultural Sciences, University of FloridaAbstract The bacterium Candidatus Liberibacter asiaticus (CLas) causes citrus Huanglongbing disease. Our understanding of the pathogenicity and biology of this microorganism remains limited because CLas has not yet been cultivated in artificial media. Its genome is relatively small and encodes approximately 1136 proteins, of which 415 have unknown functions. Here, we use a high-throughput yeast-two-hybrid (Y2H) screen to identify interactions between CLas proteins, thus providing insights into their potential functions. We identify 4245 interactions between 542 proteins, after screening 916 bait and 936 prey proteins. The false positive rate of the Y2H assay is estimated to be 2.9%. Pull-down assays for nine protein-protein interactions (PPIs) likely involved in flagellar function support the robustness of the Y2H results. The average number of PPIs per node in the CLas interactome is 15.6, which is higher than the numbers previously reported for interactomes of free-living bacteria, suggesting that CLas genome reduction has been accompanied by increased protein multi-functionality. We propose potential functions for 171 uncharacterized proteins, based on the PPI results, guilt-by-association analyses, and comparison with data from other bacterial species. We identify 40 hub-node proteins, including quinone oxidoreductase and LysR, which are known to protect other bacteria against oxidative stress and might be important for CLas survival in the phloem. We expect our PPI database to facilitate research on CLas biology and pathogenicity mechanisms.https://doi.org/10.1038/s41467-023-43648-7 |
| spellingShingle | Erica W. Carter Orlene Guerra Peraza Nian Wang The protein interactome of the citrus Huanglongbing pathogen Candidatus Liberibacter asiaticus Nature Communications |
| title | The protein interactome of the citrus Huanglongbing pathogen Candidatus Liberibacter asiaticus |
| title_full | The protein interactome of the citrus Huanglongbing pathogen Candidatus Liberibacter asiaticus |
| title_fullStr | The protein interactome of the citrus Huanglongbing pathogen Candidatus Liberibacter asiaticus |
| title_full_unstemmed | The protein interactome of the citrus Huanglongbing pathogen Candidatus Liberibacter asiaticus |
| title_short | The protein interactome of the citrus Huanglongbing pathogen Candidatus Liberibacter asiaticus |
| title_sort | protein interactome of the citrus huanglongbing pathogen candidatus liberibacter asiaticus |
| url | https://doi.org/10.1038/s41467-023-43648-7 |
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