PUL ID

PUL0611

PubMed

32071270, mBio. 2020 Feb 18;11(1):e03261-19. doi: 10.1128/mBio.03261-19.

Characterization method

liquid chromatography and mass spectrometry

Genomic accession number

RHLG01000001.1

Nucelotide position range

87985-112122

Substrate

alpha-glucan

Loci

ED556_00425-ED556_00490

Species

Winogradskyella sp. isolate Bin3/1883156

Degradation or Biosynthesis

degradation

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 2124 (-) CAZyme: GH97 Yes
- 2127 - 3806 (-) CAZyme: GH13|GH13_19 Yes
- 3811 - 5709 (-) CAZyme: GH13_38 Yes
- 5716 - 8148 (-) CAZyme: GH31 Yes
- 8225 - 9199 (-) other Yes
- 9202 - 11160 (-) CAZyme: GH13 Yes
- 11205 - 13511 (-) CAZyme: GH65 Yes
- 13538 - 14224 (-) other Yes
- 14217 - 15581 (-) TC: gnl|TC-DB|Q8EEC4|2.A.2.6.3 Yes
- 15715 - 16755 (-) TF: DBD-Pfam|LacI,DBD-SUPERFAMILY|0036955 Yes
- 17031 - 19943 (+) TC: gnl|TC-DB|Q45780|1.B.14.6.1 Yes
- 19950 - 21554 (+) TC: gnl|TC-DB|Q8A1G2|8.A.46.1.1 Yes
- 21567 - 22664 (+) CDS No
- 22675 - 24138 (+) CDS No

PUL ID

PUL0611

PubMed

32071270, mBio. 2020 Feb 18;11(1):e03261-19. doi: 10.1128/mBio.03261-19.

Title

Metagenomic and Metaproteomic Insights into Photoautotrophic and Heterotrophic Interactions in a Synechococcus Culture.

Author

Zheng Q, Wang Y, Lu J, Lin W, Chen F, Jiao N

Abstract

Microbial photoautotroph-heterotroph interactions underlie marine food webs and shape ecosystem diversity and structure in upper ocean environments. Here, bacterial community composition, lifestyle preference, and genomic- and proteomic-level metabolic characteristics were investigated for an open ocean Synechococcus ecotype and its associated heterotrophs over 91 days of cocultivation. The associated heterotrophic bacterial assembly mostly constituted five classes, including Flavobacteria, Bacteroidetes, Phycisphaerae, Gammaproteobacteria, and Alphaproteobacteria The seven most abundant taxa/genera comprised >90% of the total heterotrophic bacterial community, and five of these displayed distinct lifestyle preferences (free-living or attached) and responses to Synechococcus growth phases. Six high-quality genomes, including Synechococcus and the five dominant heterotrophic bacteria, were reconstructed. The only primary producer of the coculture system, Synechococcus, displayed metabolic processes primarily involved in inorganic nutrient uptake, photosynthesis, and organic matter biosynthesis and release. Two of the flavobacterial populations, Muricauda and Winogradskyella, and an SM1A02 population, displayed preferences for initial degradation of complex compounds and biopolymers, as evinced by high abundances of TonB-dependent transporters (TBDTs), glycoside hydrolase, and peptidase proteins. Polysaccharide utilization loci present in the flavobacterial genomes influence their lifestyle preferences and close associations with phytoplankton. In contrast, the alphaproteobacterium Oricola sp. population mainly utilized low-molecular-weight dissolved organic carbon (DOC) through ATP-binding cassette (ABC), tripartite ATP-independent periplasmic (TRAP), and tripartite tricarboxylate transporter (TTT) transport systems. The heterotrophic bacterial populations exhibited complementary mechanisms for degrading Synechococcus-derived organic matter and driving nutrient cycling. In addition to nutrient exchange, removal of reactive oxygen species and vitamin trafficking might also contribute to the maintenance of the Synechococcus-heterotroph coculture system and the interactions shaping the system.IMPORTANCE The high complexity of in situ ecosystems renders it difficult to study marine microbial photoautotroph-heterotroph interactions. Two-member coculture systems of picocyanobacteria and single heterotrophic bacterial strains have been thoroughly investigated. However, in situ interactions comprise far more diverse heterotrophic bacterial associations with single photoautotrophic organisms. In the present study, combined metagenomic and metaproteomic data supplied the metabolic potentials and activities of uncultured dominant bacterial populations in the coculture system. The results of this study shed light on the nature of interactions between photoautotrophs and heterotrophs, improving our understanding of the complexity of in situ environments.