Integration host factor regulates colonization factors in the bee gut symbiont<i>Frischella perrara</i>

Schmidt, Konstantin; Leopold-Messer, Stefan; Chazli, Yassine El; Emery, Olivier; Steiner, Théodora; Piel, Jörn; Engel, Philipp

doi:10.1101/2021.12.06.471457

Cited by 4 publications

(6 citation statements)

References 84 publications

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“…Conversely, site-specific transposon mutagenesis via Tn7, while utilized in insect symbionts 37 , does not allow for gene deletion. Site-specific deletion has been demonstrated in a handful of insect symbionts, though these strategies have used expression of exogenous lambda Red machinery (BfO2, S. glossinidius ) 41,42 , or use of a two-step suicide vector strategy ( R. rhodnii , S. glossinidius , B. insecticola , S. alvi , B. apis, F. perrara ) 22,37,38,41,43,44 , both of which add either complexity or time to knockout construction. Compared to symbiont engineering described in other insect systems, SnODIFY is highly accurate, straightforward, flexible, and reliable.…”

Section: Discussionmentioning

confidence: 99%

Single-step genome engineering in the bee gut symbiontSnodgrassella alvi

Lariviere,

Ashraf,

Leonard

et al. 2023

Preprint

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Honey bees are economically relevant pollinators experiencing population declines due to a number of threats. As in humans, the health of bees is influenced by their microbiome. The bacteriumSnodgrassella alviis a key member of the bee gut microbiome and has a role in excluding pathogens. Despite this importance, there are not currently any easy-to-use methods for modifying theS. alvichromosome to study its genetics. To solve this problem, we developed a one-step procedure that uses electroporation and homologous recombination, which we term SnODIFY (Snodgrassella-specificOne-step geneDeletion orInsertion to alterFunctionalitY). We used SnODIFY to create seven single-gene knockout mutants and recovered mutants for all constructs tested. Nearly all transformants had the designed genome modifications, indicating that SnODIFY is highly accurate. Mutant phenotypes were validated through knockout of Type 4 pilus genes, which led to reduced biofilm formation. We also used SnODIFY to insert heterologous sequences into the genome by integrating fluorescent protein-coding genes. Finally, we confirmed that genome modification is dependent onS. alvi’s endogenous RecA protein. Because it does not require expression of exogenous recombination machinery, SnODIFY is a straightforward, accurate, and lightweight method for genome editing inS. alvi. This workflow can be used to study the functions ofS. alvigenes and to engineer this symbiont for applications including protection of honey bee health.

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Section: Discussionmentioning

confidence: 99%

Single-step genome engineering in the bee gut symbiontSnodgrassella alvi

Lariviere,

Ashraf,

Leonard

et al. 2023

Preprint

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“…In the honeybee gut, phylogenetically close species of Lactobacillus Firm5 stably coexist while showing variable abundance among individuals 17 . So far, nutrient partitioning was hypothesized to partially explain the coexistence of the species 27 . Further evaluation of the bioactivity of the lanthipeptides derived from the bee gut Lactobacillus may illustrate their vital roles in mediating interactions among closely related species, which is implicated in gut homeostasis 27 .…”

Section: Discussionmentioning

confidence: 99%

“…The secondary metabolites are often small chemical compounds produced by biosynthetic enzymes encoded by biosynthetic gene clusters (BGCs). Recent studies identi ed potential BGCs in honeybee gut Apilactobacillus kunkeei 26 and Frischella perrara 27 . These secondary metabolites are thought to mediate microbe-microbe and microbe-host interactions.…”

Section: Introductionmentioning

confidence: 99%

“…These secondary metabolites are thought to mediate microbe-microbe and microbe-host interactions. F. perrara harbors a BGC for the biosynthesis of aryl polyene, which may assist its persistence in the pylorus by resisting reactive oxygen species from the host immune system 27 . It is now possible to identify biosynthetic genes in bacterial genome sequences and predict the chemical structure of the small molecules.…”

Section: Introductionmentioning

confidence: 99%

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Identification of peptides from honeybee gut symbionts as potential antimicrobial agents against Melissococcus plutonius

Zheng,

Lang,

Liu

et al. 2023

Preprint

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Eusocial pollinators are crucial elements in global agriculture. The honeybees and bumblebees are associated with a simple yet host-restricted gut community, which protect the hosts against pathogen infections. Recent genome mining has led to the discovery of biosynthesis pathways of bioactive natural products mediating microbe-microbe interactions from the gut microbiota. Here, we investigate the diversity and novelty of biosynthetic gene clusters in the bee gut microbiota by analyzing 477 genomes from cultivated bacteria and metagenome-assembled genomes. We identify 744 biosynthetic gene clusters (BGCs) covering multiple chemical classes. While gene clusters for the post-translationally modified peptides are widely distributed in the bee guts, the distribution of the BGC classes varies significantly in different bee species among geographic locations, which is attributed to the strain-level variation of bee gut members in the chemical repertoire. Interestingly, we find that Gilliamella strains possessing a thiopeptide-like BGC show potent activity against the pathogenic Melissococcus plutonius. The spectrometry-guided genome mining reveals a RiPP-encoding BGC from Gilliamella with a 10 amino acid-long core peptide exhibiting antibacterial potentials. This study illustrates the widespread small-molecule-encoding BGCs in the bee gut symbionts and provides new insight into the bacteria-derived natural products as potential antimicrobial agents against pathogenic infections.

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“…PCR products were purified by VAHTSTM DNA Clean Beads and then sequenced on Illumina HiSeq sequencer using 2×150bp double-terminal sequencing by Shanghai Personalbio Technology CO. , LTD.. The quality of data was controlled using FastQC (http://www.bioinformatics.babraham.ac.uk/projects/fastqc) (Schmidt et al, 2021). Reads with Q20 [?]…”

Section: Snps Screened and Acquisitionmentioning

confidence: 99%

Landscape characteristics determine the gene exchange pattern of Opisthopappus species in the Taihang Mountains

Zhang¹,

Ye²,

Liu³

et al. 2022

Preprint

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Landscape features are effective geographical barriers resulting inpopulation differentiation of plant species. Taihang Mountains in China possess complexly geographical topology and specific landscape characteristics. Two closely related syntopic Opisthopappus species, mainly distribute in different areas of Taihang Mountains, respectively. How the landscape of Taihang Mountains affects the gene exchange between these two species still unclear. Combined SNP data from restriction-site associated DNA sequencing (RAD-seq) and recently developed landscape genetic methods (EEMS, Samβada, LFMM), we conducted a landscape genetic analysis of these two species. It found that the diversity of O. longilobus was higher than that of O. taihangensis, the gene flow was mostly from north to south along Taihang Mountains. However, a general north–south gene exchange barrier between O. longilobus and O. taihangensis was detected. Among the landscape factors of Taihang Mountains, eight was found to be the important ones, including average precipitation in August, October, and November, solar radiation in August, soil PH, built-up land, rain-fed cultivated land, and workability. And these eight factors were closely related to the occurred barriers, indicating that climatic conditions and human activities rather than geographical environment resulted in these barriers. Twenty-nine selected SNPs were identified to be significant correlated with the eight factors, especially average precipitation in November. Thus, the average precipitation in November could be regarded as an ecological indicator for O. longilobus and O. taihangensis. The results revealed the effect of landscape features on two species and the adaption on the landscape environment of Taihang Mountains during the long-term evolution.

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Integration host factor regulates colonization factors in the bee gut symbiontFrischella perrara

Cited by 4 publications

References 84 publications

Single-step genome engineering in the bee gut symbiontSnodgrassella alvi

Single-step genome engineering in the bee gut symbiontSnodgrassella alvi

Identification of peptides from honeybee gut symbionts as potential antimicrobial agents against Melissococcus plutonius

Landscape characteristics determine the gene exchange pattern of Opisthopappus species in the Taihang Mountains

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