Graphical abstract Machushynets (2026)
New publication: #Diversification of Tridecaptin #Chemical Space via a Chimeric #Biosynthetic Pathway in #Paenibacillus by @gillesvanwezel.bsky.social and others.
doi.org/10.1021/acs....
#Biosynthetic potential of #endophytic fungi from #tropical medicinal plants: #genomic and #metabolomic perspectives
doi.org/10.1080/2150...
@tandfresearch.bsky.social
Major iridoids identified in 10 studied Nepeta taxa: (A) Plants were grown under controlled greenhouse conditions and subsequently subjected to metabolic profiling of iridoids. (B) Major iridoid aglycones (IAs) and iridoid glycosides (IGs) detected in Nepeta taxa are presented within the dashed black and red boxes, respectively.
🐾We *promise* this🐾post wasn't written🐾by a cat...🤞
🐾 Banjanac et al. report🐾that iridoid diversity in🐾catmints is at least partially attributed🐾to #evolutionary gains🐾and losses of key🐾 #biosynthetic #genes.
🔗 doi.org/10.1111/jipb...
@wileylifesci.bsky.social
#PlantSci #JIPB 🐾 #meow #OpenAccess
One such initiative is #MIBiG. Founded in 2015, it has become the gold standard database for #biosynthetic gene clusters due to the tireless efforts of the #secmet #naturalproducts community. However, the biocuration efforts were mostly organized ad hoc, lacking a organizational framework (3/8).
Deduced biosynthetic pathways for lichen acids.
#Biosynthetic gene clusters for #lichen #acids production
Wonyong Kim, et al.
nph.onlinelibrary.wiley.com/doi/10.1111/...
#PlantScience
Detection of functional clusters (FCs) specific to the phenylalanine (PAL) and p-coumaroyltyramine (THT) pathways. Top left: Network depicting the relationship between transcripts and mass signatures within the PAL FC. Bottom left: Network illustrating the interplay between transcripts and mass signatures within the THT FC. Top right: Heatmap illustrating the expression levels of all transcripts within the PAL and THT FCs. Upper middle right: Heatmap displaying the abundance of all mass signatures present in the PAL and THT FCs. Lower middle right: Correlation matrix highlighting the correlations among transcripts and mass signatures within the PAL FC. Bottom right: Correlation matrix displaying the relationships between transcripts and mass signatures within the THT FC, including Mutual rank and transformed edge weights.
Elucidating #plant #Biosynthetic pathways: @jjjvanderhooft.bsky.social @marnixmedema.bsky.social &co develop #MEANtools, an unsupervised computational workflow that integrates #MultiOmics data to predict #metabolic pathways by linking transcripts to metabolites @plosbiology.org 🧪 plos.io/4odL94g
Detection of functional clusters (FCs) specific to the phenylalanine (PAL) and p-coumaroyltyramine (THT) pathways. Top left: Network depicting the relationship between transcripts and mass signatures within the PAL FC. Bottom left: Network illustrating the interplay between transcripts and mass signatures within the THT FC. Top right: Heatmap illustrating the expression levels of all transcripts within the PAL and THT FCs. Upper middle right: Heatmap displaying the abundance of all mass signatures present in the PAL and THT FCs. Lower middle right: Correlation matrix highlighting the correlations among transcripts and mass signatures within the PAL FC. Bottom right: Correlation matrix displaying the relationships between transcripts and mass signatures within the THT FC, including Mutual rank and transformed edge weights.
Elucidating #plant #Biosynthetic pathways: @jjjvanderhooft.bsky.social @marnixmedema.bsky.social &co develop #MEANtools, an unsupervised computational workflow that integrates #MultiOmics data to predict #metabolic pathways by linking transcripts to metabolites @plosbiology.org 🧪 plos.io/4odL94g
Detection of functional clusters (FCs) specific to the phenylalanine (PAL) and p-coumaroyltyramine (THT) pathways. Top left: Network depicting the relationship between transcripts and mass signatures within the PAL FC. Bottom left: Network illustrating the interplay between transcripts and mass signatures within the THT FC. Top right: Heatmap illustrating the expression levels of all transcripts within the PAL and THT FCs. Upper middle right: Heatmap displaying the abundance of all mass signatures present in the PAL and THT FCs. Lower middle right: Correlation matrix highlighting the correlations among transcripts and mass signatures within the PAL FC. Bottom right: Correlation matrix displaying the relationships between transcripts and mass signatures within the THT FC, including Mutual rank and transformed edge weights.
Elucidating #plant #Biosynthetic pathways: @jjjvanderhooft.bsky.social @marnixmedema.bsky.social &co develop #MEANtools, an unsupervised computational workflow that integrates #MultiOmics data to predict #metabolic pathways by linking transcripts to metabolites @plosbiology.org 🧪 plos.io/4odL94g
Left: Predicted gene regulatory network of Streptomyces coelicolor based on 17 well-known regulators. Each node in the network represents a (regulatory) gene, and every edge represents a PWM predicted regulatory interaction between nodes. The edges colored in dark gray indicate strong PWM prediction scores, while the lighter gray shades represent weaker interactions. Matches within BGC regions are depicted as triangles. In six regions (black circled), the matches fall within a co-expressed region, highlighting their functional relation to these compounds. Right: Proposed biosynthetic pathway for assembly of desferrioxamines E and B. Main biosynthetic enzymes presented in bold face. DesG and DesH balance intracellular N-hydroxy-N-succinylcadaverine (HSC) and N-hydroxy-N-acetylcadaverine (HAC) concentrations by converting HSC to HAC. In the absence of DesG and/or DesH, the cells likely fail to produce sufficient levels of HAC, thereby strongly attenuating the production of DFOB. Although DesC has been shown to be able to catalyze the acetylation of N-hydroxycadaverine in vitro, the enzyme can only modestly compensate for the loss of DesH in vivo, underlining the important role played by DesG and DesH in DFOB production.
Most #biosynthetic gene clusters remain uncharacterized. @marnixmedema.bsky.social @gillesvanwezel.bsky.social &co integrate #GRN analysis & global expression data to identify desJGH as an operon essential for #biosynthesis of #desferrioxamineB in Streptomyces @plosbiology.org 🧪 plos.io/43UVUPB
Left: Predicted gene regulatory network of Streptomyces coelicolor based on 17 well-known regulators. Each node in the network represents a (regulatory) gene, and every edge represents a PWM predicted regulatory interaction between nodes. The edges colored in dark gray indicate strong PWM prediction scores, while the lighter gray shades represent weaker interactions. Matches within BGC regions are depicted as triangles. In six regions (black circled), the matches fall within a co-expressed region, highlighting their functional relation to these compounds. Right: Proposed biosynthetic pathway for assembly of desferrioxamines E and B. Main biosynthetic enzymes presented in bold face. DesG and DesH balance intracellular N-hydroxy-N-succinylcadaverine (HSC) and N-hydroxy-N-acetylcadaverine (HAC) concentrations by converting HSC to HAC. In the absence of DesG and/or DesH, the cells likely fail to produce sufficient levels of HAC, thereby strongly attenuating the production of DFOB. Although DesC has been shown to be able to catalyze the acetylation of N-hydroxycadaverine in vitro, the enzyme can only modestly compensate for the loss of DesH in vivo, underlining the important role played by DesG and DesH in DFOB production.
Most #biosynthetic gene clusters remain uncharacterized. @marnixmedema.bsky.social @gillesvanwezel.bsky.social &co integrate #GRN analysis & global expression data to identify desJGH as an operon essential for #biosynthesis of #desferrioxamineB in Streptomyces @plosbiology.org 🧪 plos.io/43UVUPB
Left: Predicted gene regulatory network of Streptomyces coelicolor based on 17 well-known regulators. Each node in the network represents a (regulatory) gene, and every edge represents a PWM predicted regulatory interaction between nodes. The edges colored in dark gray indicate strong PWM prediction scores, while the lighter gray shades represent weaker interactions. Matches within BGC regions are depicted as triangles. In six regions (black circled), the matches fall within a co-expressed region, highlighting their functional relation to these compounds. Right: Proposed biosynthetic pathway for assembly of desferrioxamines E and B. Main biosynthetic enzymes presented in bold face. DesG and DesH balance intracellular N-hydroxy-N-succinylcadaverine (HSC) and N-hydroxy-N-acetylcadaverine (HAC) concentrations by converting HSC to HAC. In the absence of DesG and/or DesH, the cells likely fail to produce sufficient levels of HAC, thereby strongly attenuating the production of DFOB. Although DesC has been shown to be able to catalyze the acetylation of N-hydroxycadaverine in vitro, the enzyme can only modestly compensate for the loss of DesH in vivo, underlining the important role played by DesG and DesH in DFOB production.
Most #biosynthetic gene clusters remain uncharacterized. @marnixmedema.bsky.social @gillesvanwezel.bsky.social &co integrate #GRN analysis & global expression data to identify desJGH as an operon essential for #biosynthesis of #desferrioxamineB in Streptomyces @plosbiology.org 🧪 plos.io/43UVUPB
Process summary for a new study that (top left) isolated fifteen new Micromonospora spp. strains from desert and marine habitats, (top right) isolated four new species, and (bottom right and left) comprehensively characterized their biosynthetic profiles using genomic and metabolomic analysis.
Micromonospora spp. are a prolific source of bioactive natural products.
This multi-omics study combines #genome mining and #metabolomics to explore the #biosynthetic potential of wild-type strains from extreme habitats.
doi.org/10.1111/jse....
#bacteria
Our paper on #biosynthetic genes coding for ribosomal #peptides is out now: rdcu.be/ekux7! We present the 1st report of #RiPP-BGCs presence & diversity in #lichens. Spoiler: they’re ubiquitous & make up ~15–20% of #BGCs. #secondarymetabolites #fungi #genomeMining
Small RNAs modulate carotenoid and betalain biosynthesis.
Painting the plant body: #pigment #biosynthetic pathways regulated by small #RNAs
A #ResearchReview by Barrera Rojas et al.
👇
📖 nph.onlinelibrary.wiley.com/doi/10.1111/nph.20287
#LatestIssue
Prediction: In national security circles, #biosynthetic tech will be a massive topic of debate in 2025. It's already a big topic in some defense orgs and private conversations. But it's going to be huge this year in public
