mem vitamin mix 1x Search Results


f 10 nut mix 1x glutamax tm 1 medium  (ATCC)
94
ATCC f 10 nut mix 1x glutamax tm 1 medium
F 10 Nut Mix 1x Glutamax Tm 1 Medium, supplied by ATCC, used in various techniques. Bioz Stars score: 94/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/mem+vitamin+mix+1x/pm24169548-78-17-10?v=ATCC
Average 94 stars, based on 1 article reviews
f 10 nut mix 1x glutamax tm 1 medium - by Bioz Stars, 2026-06
94/100 stars
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1x r2a medium  (Teknova)
93
Teknova 1x r2a medium
1. MiND was performed by measuring TE for import proteins in a 16-member SynCom grown in complex medium and was employed to predict each microbe’s substrate preferences. a , b , and c show TE for ribose, glutathione, and putrescine import proteins, respectively. Organisms with high TE for a substrate’s import protein were predicted to increase in relative abundance upon addition of this substrate as a prebiotic to the culture medium (primary targets); d) 2. Guilds were used to predict competition in the SynCom as described in . Competitors of the organisms that benefit from a prebiotic intervention were predicted to decrease in relative abundance (secondary targets); e- j) 3. Predictions made in a-d) were experimentally validated by supplementing the SynCom culture medium with selected substrates; e-g) linear regression and 99% CI of metagenomic relative abundances (RPKM, log scaled) in <t>0.1x</t> <t>R2A</t> control versus 0.1x R2A + ribose ( e ), glutathione ( f ) or putrescine ( g ). Microorganisms above or below the 99% CI are considered significantly increased or decreased upon metabolite addition (arrows). As predicted, 6/7 organisms that increased in relative abundance had a high TE for the added substrate’s import protein(s), and 9/10 microbes that concomitantly decreased were competitors from a similar guild (see for detailed competition scores). Note: we did not predict Brevibacillus decrease in f) and Chitinophaga increase in g); h-j) boxplots showing RPKM abundance of significantly increased primary targets with increasing concentration of ribose ( h ), glutathione ( i ), or putrescine ( j ). More examples are available in Suppl. Fig S12, S15 and S16.
1x R2a Medium, supplied by Teknova, used in various techniques. Bioz Stars score: 93/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/mem+vitamin+mix+1x/bio_rxiv__2023__05__11__540389-185-11-14?v=Teknova
Average 93 stars, based on 1 article reviews
1x r2a medium - by Bioz Stars, 2026-06
93/100 stars
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1x mem vitamin solution  (Corning Life Sciences)
90
Corning Life Sciences 1x mem vitamin solution
1. MiND was performed by measuring TE for import proteins in a 16-member SynCom grown in complex medium and was employed to predict each microbe’s substrate preferences. a , b , and c show TE for ribose, glutathione, and putrescine import proteins, respectively. Organisms with high TE for a substrate’s import protein were predicted to increase in relative abundance upon addition of this substrate as a prebiotic to the culture medium (primary targets); d) 2. Guilds were used to predict competition in the SynCom as described in . Competitors of the organisms that benefit from a prebiotic intervention were predicted to decrease in relative abundance (secondary targets); e- j) 3. Predictions made in a-d) were experimentally validated by supplementing the SynCom culture medium with selected substrates; e-g) linear regression and 99% CI of metagenomic relative abundances (RPKM, log scaled) in <t>0.1x</t> <t>R2A</t> control versus 0.1x R2A + ribose ( e ), glutathione ( f ) or putrescine ( g ). Microorganisms above or below the 99% CI are considered significantly increased or decreased upon metabolite addition (arrows). As predicted, 6/7 organisms that increased in relative abundance had a high TE for the added substrate’s import protein(s), and 9/10 microbes that concomitantly decreased were competitors from a similar guild (see for detailed competition scores). Note: we did not predict Brevibacillus decrease in f) and Chitinophaga increase in g); h-j) boxplots showing RPKM abundance of significantly increased primary targets with increasing concentration of ribose ( h ), glutathione ( i ), or putrescine ( j ). More examples are available in Suppl. Fig S12, S15 and S16.
1x Mem Vitamin Solution, supplied by Corning Life Sciences, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/mem+vitamin+mix+1x/pm38135509-26-4-8?v=Corning+Life+Sciences
Average 90 stars, based on 1 article reviews
1x mem vitamin solution - by Bioz Stars, 2026-06
90/100 stars
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1x minimum essential medium mem vitamin solution  (Thermo Fisher)
96
Thermo Fisher 1x minimum essential medium mem vitamin solution
1. MiND was performed by measuring TE for import proteins in a 16-member SynCom grown in complex medium and was employed to predict each microbe’s substrate preferences. a , b , and c show TE for ribose, glutathione, and putrescine import proteins, respectively. Organisms with high TE for a substrate’s import protein were predicted to increase in relative abundance upon addition of this substrate as a prebiotic to the culture medium (primary targets); d) 2. Guilds were used to predict competition in the SynCom as described in . Competitors of the organisms that benefit from a prebiotic intervention were predicted to decrease in relative abundance (secondary targets); e- j) 3. Predictions made in a-d) were experimentally validated by supplementing the SynCom culture medium with selected substrates; e-g) linear regression and 99% CI of metagenomic relative abundances (RPKM, log scaled) in <t>0.1x</t> <t>R2A</t> control versus 0.1x R2A + ribose ( e ), glutathione ( f ) or putrescine ( g ). Microorganisms above or below the 99% CI are considered significantly increased or decreased upon metabolite addition (arrows). As predicted, 6/7 organisms that increased in relative abundance had a high TE for the added substrate’s import protein(s), and 9/10 microbes that concomitantly decreased were competitors from a similar guild (see for detailed competition scores). Note: we did not predict Brevibacillus decrease in f) and Chitinophaga increase in g); h-j) boxplots showing RPKM abundance of significantly increased primary targets with increasing concentration of ribose ( h ), glutathione ( i ), or putrescine ( j ). More examples are available in Suppl. Fig S12, S15 and S16.
1x Minimum Essential Medium Mem Vitamin Solution, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 96/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/mem+vitamin+mix+1x/pm39955738-61-92-99?v=Thermo+Fisher
Average 96 stars, based on 1 article reviews
1x minimum essential medium mem vitamin solution - by Bioz Stars, 2026-06
96/100 stars
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skoog ms agar media  (Bacto Laboratories)
86
Bacto Laboratories skoog ms agar media
1. MiND was performed by measuring TE for import proteins in a 16-member SynCom grown in complex medium and was employed to predict each microbe’s substrate preferences. a , b , and c show TE for ribose, glutathione, and putrescine import proteins, respectively. Organisms with high TE for a substrate’s import protein were predicted to increase in relative abundance upon addition of this substrate as a prebiotic to the culture medium (primary targets); d) 2. Guilds were used to predict competition in the SynCom as described in . Competitors of the organisms that benefit from a prebiotic intervention were predicted to decrease in relative abundance (secondary targets); e- j) 3. Predictions made in a-d) were experimentally validated by supplementing the SynCom culture medium with selected substrates; e-g) linear regression and 99% CI of metagenomic relative abundances (RPKM, log scaled) in <t>0.1x</t> <t>R2A</t> control versus 0.1x R2A + ribose ( e ), glutathione ( f ) or putrescine ( g ). Microorganisms above or below the 99% CI are considered significantly increased or decreased upon metabolite addition (arrows). As predicted, 6/7 organisms that increased in relative abundance had a high TE for the added substrate’s import protein(s), and 9/10 microbes that concomitantly decreased were competitors from a similar guild (see for detailed competition scores). Note: we did not predict Brevibacillus decrease in f) and Chitinophaga increase in g); h-j) boxplots showing RPKM abundance of significantly increased primary targets with increasing concentration of ribose ( h ), glutathione ( i ), or putrescine ( j ). More examples are available in Suppl. Fig S12, S15 and S16.
Skoog Ms Agar Media, supplied by Bacto Laboratories, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/mem+vitamin+mix+1x/pmc12633873-500-36-23?v=Bacto+Laboratories
Average 86 stars, based on 1 article reviews
skoog ms agar media - by Bioz Stars, 2026-06
86/100 stars
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penicillin streptomycin corning 30001ci 1x n 2 supplement gibco 17502001 1x retinal differentiation medium rdm  (Thermo Fisher)
99
Thermo Fisher penicillin streptomycin corning 30001ci 1x n 2 supplement gibco 17502001 1x retinal differentiation medium rdm
1. MiND was performed by measuring TE for import proteins in a 16-member SynCom grown in complex medium and was employed to predict each microbe’s substrate preferences. a , b , and c show TE for ribose, glutathione, and putrescine import proteins, respectively. Organisms with high TE for a substrate’s import protein were predicted to increase in relative abundance upon addition of this substrate as a prebiotic to the culture medium (primary targets); d) 2. Guilds were used to predict competition in the SynCom as described in . Competitors of the organisms that benefit from a prebiotic intervention were predicted to decrease in relative abundance (secondary targets); e- j) 3. Predictions made in a-d) were experimentally validated by supplementing the SynCom culture medium with selected substrates; e-g) linear regression and 99% CI of metagenomic relative abundances (RPKM, log scaled) in <t>0.1x</t> <t>R2A</t> control versus 0.1x R2A + ribose ( e ), glutathione ( f ) or putrescine ( g ). Microorganisms above or below the 99% CI are considered significantly increased or decreased upon metabolite addition (arrows). As predicted, 6/7 organisms that increased in relative abundance had a high TE for the added substrate’s import protein(s), and 9/10 microbes that concomitantly decreased were competitors from a similar guild (see for detailed competition scores). Note: we did not predict Brevibacillus decrease in f) and Chitinophaga increase in g); h-j) boxplots showing RPKM abundance of significantly increased primary targets with increasing concentration of ribose ( h ), glutathione ( i ), or putrescine ( j ). More examples are available in Suppl. Fig S12, S15 and S16.
Penicillin Streptomycin Corning 30001ci 1x N 2 Supplement Gibco 17502001 1x Retinal Differentiation Medium Rdm, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/mem+vitamin+mix+1x/pmc09513742__iovs___63___10___12_s001-18-39-45?v=Thermo+Fisher
Average 99 stars, based on 1 article reviews
penicillin streptomycin corning 30001ci 1x n 2 supplement gibco 17502001 1x retinal differentiation medium rdm - by Bioz Stars, 2026-06
99/100 stars
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1x mem vitamins  (Biochrom)
90
Biochrom 1x mem vitamins
1. MiND was performed by measuring TE for import proteins in a 16-member SynCom grown in complex medium and was employed to predict each microbe’s substrate preferences. a , b , and c show TE for ribose, glutathione, and putrescine import proteins, respectively. Organisms with high TE for a substrate’s import protein were predicted to increase in relative abundance upon addition of this substrate as a prebiotic to the culture medium (primary targets); d) 2. Guilds were used to predict competition in the SynCom as described in . Competitors of the organisms that benefit from a prebiotic intervention were predicted to decrease in relative abundance (secondary targets); e- j) 3. Predictions made in a-d) were experimentally validated by supplementing the SynCom culture medium with selected substrates; e-g) linear regression and 99% CI of metagenomic relative abundances (RPKM, log scaled) in <t>0.1x</t> <t>R2A</t> control versus 0.1x R2A + ribose ( e ), glutathione ( f ) or putrescine ( g ). Microorganisms above or below the 99% CI are considered significantly increased or decreased upon metabolite addition (arrows). As predicted, 6/7 organisms that increased in relative abundance had a high TE for the added substrate’s import protein(s), and 9/10 microbes that concomitantly decreased were competitors from a similar guild (see for detailed competition scores). Note: we did not predict Brevibacillus decrease in f) and Chitinophaga increase in g); h-j) boxplots showing RPKM abundance of significantly increased primary targets with increasing concentration of ribose ( h ), glutathione ( i ), or putrescine ( j ). More examples are available in Suppl. Fig S12, S15 and S16.
1x Mem Vitamins, supplied by Biochrom, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/mem+vitamin+mix+1x/bio_rxiv__2024__05__21__595142-140-33-36?v=Biochrom
Average 90 stars, based on 1 article reviews
1x mem vitamins - by Bioz Stars, 2026-06
90/100 stars
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mem vitamins solution  (Lonza)
90
Lonza mem vitamins solution
1. MiND was performed by measuring TE for import proteins in a 16-member SynCom grown in complex medium and was employed to predict each microbe’s substrate preferences. a , b , and c show TE for ribose, glutathione, and putrescine import proteins, respectively. Organisms with high TE for a substrate’s import protein were predicted to increase in relative abundance upon addition of this substrate as a prebiotic to the culture medium (primary targets); d) 2. Guilds were used to predict competition in the SynCom as described in . Competitors of the organisms that benefit from a prebiotic intervention were predicted to decrease in relative abundance (secondary targets); e- j) 3. Predictions made in a-d) were experimentally validated by supplementing the SynCom culture medium with selected substrates; e-g) linear regression and 99% CI of metagenomic relative abundances (RPKM, log scaled) in <t>0.1x</t> <t>R2A</t> control versus 0.1x R2A + ribose ( e ), glutathione ( f ) or putrescine ( g ). Microorganisms above or below the 99% CI are considered significantly increased or decreased upon metabolite addition (arrows). As predicted, 6/7 organisms that increased in relative abundance had a high TE for the added substrate’s import protein(s), and 9/10 microbes that concomitantly decreased were competitors from a similar guild (see for detailed competition scores). Note: we did not predict Brevibacillus decrease in f) and Chitinophaga increase in g); h-j) boxplots showing RPKM abundance of significantly increased primary targets with increasing concentration of ribose ( h ), glutathione ( i ), or putrescine ( j ). More examples are available in Suppl. Fig S12, S15 and S16.
Mem Vitamins Solution, supplied by Lonza, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/mem+vitamin+mix+1x/pmc09836368-35-31-35?v=Lonza
Average 90 stars, based on 1 article reviews
mem vitamins solution - by Bioz Stars, 2026-06
90/100 stars
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mem vitamins  (Corning Life Sciences)
90
Corning Life Sciences mem vitamins
1. MiND was performed by measuring TE for import proteins in a 16-member SynCom grown in complex medium and was employed to predict each microbe’s substrate preferences. a , b , and c show TE for ribose, glutathione, and putrescine import proteins, respectively. Organisms with high TE for a substrate’s import protein were predicted to increase in relative abundance upon addition of this substrate as a prebiotic to the culture medium (primary targets); d) 2. Guilds were used to predict competition in the SynCom as described in . Competitors of the organisms that benefit from a prebiotic intervention were predicted to decrease in relative abundance (secondary targets); e- j) 3. Predictions made in a-d) were experimentally validated by supplementing the SynCom culture medium with selected substrates; e-g) linear regression and 99% CI of metagenomic relative abundances (RPKM, log scaled) in <t>0.1x</t> <t>R2A</t> control versus 0.1x R2A + ribose ( e ), glutathione ( f ) or putrescine ( g ). Microorganisms above or below the 99% CI are considered significantly increased or decreased upon metabolite addition (arrows). As predicted, 6/7 organisms that increased in relative abundance had a high TE for the added substrate’s import protein(s), and 9/10 microbes that concomitantly decreased were competitors from a similar guild (see for detailed competition scores). Note: we did not predict Brevibacillus decrease in f) and Chitinophaga increase in g); h-j) boxplots showing RPKM abundance of significantly increased primary targets with increasing concentration of ribose ( h ), glutathione ( i ), or putrescine ( j ). More examples are available in Suppl. Fig S12, S15 and S16.
Mem Vitamins, supplied by Corning Life Sciences, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/mem+vitamin+mix+1x/bio_rxiv__2024__06__04__597417-62-31-34?v=Corning+Life+Sciences
Average 90 stars, based on 1 article reviews
mem vitamins - by Bioz Stars, 2026-06
90/100 stars
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1x mem vitamins solution  (Lonza)
90
Lonza 1x mem vitamins solution
1. MiND was performed by measuring TE for import proteins in a 16-member SynCom grown in complex medium and was employed to predict each microbe’s substrate preferences. a , b , and c show TE for ribose, glutathione, and putrescine import proteins, respectively. Organisms with high TE for a substrate’s import protein were predicted to increase in relative abundance upon addition of this substrate as a prebiotic to the culture medium (primary targets); d) 2. Guilds were used to predict competition in the SynCom as described in . Competitors of the organisms that benefit from a prebiotic intervention were predicted to decrease in relative abundance (secondary targets); e- j) 3. Predictions made in a-d) were experimentally validated by supplementing the SynCom culture medium with selected substrates; e-g) linear regression and 99% CI of metagenomic relative abundances (RPKM, log scaled) in <t>0.1x</t> <t>R2A</t> control versus 0.1x R2A + ribose ( e ), glutathione ( f ) or putrescine ( g ). Microorganisms above or below the 99% CI are considered significantly increased or decreased upon metabolite addition (arrows). As predicted, 6/7 organisms that increased in relative abundance had a high TE for the added substrate’s import protein(s), and 9/10 microbes that concomitantly decreased were competitors from a similar guild (see for detailed competition scores). Note: we did not predict Brevibacillus decrease in f) and Chitinophaga increase in g); h-j) boxplots showing RPKM abundance of significantly increased primary targets with increasing concentration of ribose ( h ), glutathione ( i ), or putrescine ( j ). More examples are available in Suppl. Fig S12, S15 and S16.
1x Mem Vitamins Solution, supplied by Lonza, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/mem+vitamin+mix+1x/pm35871544-39-30-34?v=Lonza
Average 90 stars, based on 1 article reviews
1x mem vitamins solution - by Bioz Stars, 2026-06
90/100 stars
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medium  (Thermo Fisher)
99
Thermo Fisher medium
1. MiND was performed by measuring TE for import proteins in a 16-member SynCom grown in complex medium and was employed to predict each microbe’s substrate preferences. a , b , and c show TE for ribose, glutathione, and putrescine import proteins, respectively. Organisms with high TE for a substrate’s import protein were predicted to increase in relative abundance upon addition of this substrate as a prebiotic to the culture medium (primary targets); d) 2. Guilds were used to predict competition in the SynCom as described in . Competitors of the organisms that benefit from a prebiotic intervention were predicted to decrease in relative abundance (secondary targets); e- j) 3. Predictions made in a-d) were experimentally validated by supplementing the SynCom culture medium with selected substrates; e-g) linear regression and 99% CI of metagenomic relative abundances (RPKM, log scaled) in <t>0.1x</t> <t>R2A</t> control versus 0.1x R2A + ribose ( e ), glutathione ( f ) or putrescine ( g ). Microorganisms above or below the 99% CI are considered significantly increased or decreased upon metabolite addition (arrows). As predicted, 6/7 organisms that increased in relative abundance had a high TE for the added substrate’s import protein(s), and 9/10 microbes that concomitantly decreased were competitors from a similar guild (see for detailed competition scores). Note: we did not predict Brevibacillus decrease in f) and Chitinophaga increase in g); h-j) boxplots showing RPKM abundance of significantly increased primary targets with increasing concentration of ribose ( h ), glutathione ( i ), or putrescine ( j ). More examples are available in Suppl. Fig S12, S15 and S16.
Medium, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/mem+vitamin+mix+1x/pm28232089-45-45-74?v=Thermo+Fisher
Average 99 stars, based on 1 article reviews
medium - by Bioz Stars, 2026-06
99/100 stars
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chondreogenic lineage  (Thermo Fisher)
99
Thermo Fisher chondreogenic lineage
1. MiND was performed by measuring TE for import proteins in a 16-member SynCom grown in complex medium and was employed to predict each microbe’s substrate preferences. a , b , and c show TE for ribose, glutathione, and putrescine import proteins, respectively. Organisms with high TE for a substrate’s import protein were predicted to increase in relative abundance upon addition of this substrate as a prebiotic to the culture medium (primary targets); d) 2. Guilds were used to predict competition in the SynCom as described in . Competitors of the organisms that benefit from a prebiotic intervention were predicted to decrease in relative abundance (secondary targets); e- j) 3. Predictions made in a-d) were experimentally validated by supplementing the SynCom culture medium with selected substrates; e-g) linear regression and 99% CI of metagenomic relative abundances (RPKM, log scaled) in <t>0.1x</t> <t>R2A</t> control versus 0.1x R2A + ribose ( e ), glutathione ( f ) or putrescine ( g ). Microorganisms above or below the 99% CI are considered significantly increased or decreased upon metabolite addition (arrows). As predicted, 6/7 organisms that increased in relative abundance had a high TE for the added substrate’s import protein(s), and 9/10 microbes that concomitantly decreased were competitors from a similar guild (see for detailed competition scores). Note: we did not predict Brevibacillus decrease in f) and Chitinophaga increase in g); h-j) boxplots showing RPKM abundance of significantly increased primary targets with increasing concentration of ribose ( h ), glutathione ( i ), or putrescine ( j ). More examples are available in Suppl. Fig S12, S15 and S16.
Chondreogenic Lineage, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/mem+vitamin+mix+1x/10__1111_slash_j__1439___0531__2012__02119__x-8279-48-57?v=Thermo+Fisher
Average 99 stars, based on 1 article reviews
chondreogenic lineage - by Bioz Stars, 2026-06
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Image Search Results


1. MiND was performed by measuring TE for import proteins in a 16-member SynCom grown in complex medium and was employed to predict each microbe’s substrate preferences. a , b , and c show TE for ribose, glutathione, and putrescine import proteins, respectively. Organisms with high TE for a substrate’s import protein were predicted to increase in relative abundance upon addition of this substrate as a prebiotic to the culture medium (primary targets); d) 2. Guilds were used to predict competition in the SynCom as described in . Competitors of the organisms that benefit from a prebiotic intervention were predicted to decrease in relative abundance (secondary targets); e- j) 3. Predictions made in a-d) were experimentally validated by supplementing the SynCom culture medium with selected substrates; e-g) linear regression and 99% CI of metagenomic relative abundances (RPKM, log scaled) in 0.1x R2A control versus 0.1x R2A + ribose ( e ), glutathione ( f ) or putrescine ( g ). Microorganisms above or below the 99% CI are considered significantly increased or decreased upon metabolite addition (arrows). As predicted, 6/7 organisms that increased in relative abundance had a high TE for the added substrate’s import protein(s), and 9/10 microbes that concomitantly decreased were competitors from a similar guild (see for detailed competition scores). Note: we did not predict Brevibacillus decrease in f) and Chitinophaga increase in g); h-j) boxplots showing RPKM abundance of significantly increased primary targets with increasing concentration of ribose ( h ), glutathione ( i ), or putrescine ( j ). More examples are available in Suppl. Fig S12, S15 and S16.

Journal: bioRxiv

Article Title: Guild and Niche Determination Enable Targeted Alteration of the Microbiome

doi: 10.1101/2023.05.11.540389

Figure Lengend Snippet: 1. MiND was performed by measuring TE for import proteins in a 16-member SynCom grown in complex medium and was employed to predict each microbe’s substrate preferences. a , b , and c show TE for ribose, glutathione, and putrescine import proteins, respectively. Organisms with high TE for a substrate’s import protein were predicted to increase in relative abundance upon addition of this substrate as a prebiotic to the culture medium (primary targets); d) 2. Guilds were used to predict competition in the SynCom as described in . Competitors of the organisms that benefit from a prebiotic intervention were predicted to decrease in relative abundance (secondary targets); e- j) 3. Predictions made in a-d) were experimentally validated by supplementing the SynCom culture medium with selected substrates; e-g) linear regression and 99% CI of metagenomic relative abundances (RPKM, log scaled) in 0.1x R2A control versus 0.1x R2A + ribose ( e ), glutathione ( f ) or putrescine ( g ). Microorganisms above or below the 99% CI are considered significantly increased or decreased upon metabolite addition (arrows). As predicted, 6/7 organisms that increased in relative abundance had a high TE for the added substrate’s import protein(s), and 9/10 microbes that concomitantly decreased were competitors from a similar guild (see for detailed competition scores). Note: we did not predict Brevibacillus decrease in f) and Chitinophaga increase in g); h-j) boxplots showing RPKM abundance of significantly increased primary targets with increasing concentration of ribose ( h ), glutathione ( i ), or putrescine ( j ). More examples are available in Suppl. Fig S12, S15 and S16.

Article Snippet: Precultures of individual isolates were generated in 5 mL of liquid 1x R2A medium (Teknova, cat # R0005) under oxic conditions and grown at 30 °C for 7 days without shaking.

Techniques: Control, Concentration Assay