Matthew L. Bochman

Matthew L. Bochman

Bloomington, IN

Indiana University; Wild Pitch Yeast, LLC

Assistant professor

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Haven't backed any projects yet! 

Published on Mar 12, 2020

My organizational skills are lacking...

Hi backers. We've finally analyzed all of the data and are ready to send the info on your samples back to you as we begin to do group comparisons. However, I've managed to misplace my list connec...

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Published on Feb 25, 2020

Data analysis

Hey everyone, this lab note is visible only to our backers:We've begun data analysis, and thanks to the hard work of Renan Piraine, we've already found the "missing" Brettanomyces in the sequencing...

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Published on Feb 05, 2020

More data analysis

In sifting through the mountain of sequencing data that we have now, we noticed some discrepancies on the yeast side of things, and Zymo had to rerun their in-house analyses due to some kind of bug...

Group 6 Copy 238
Published on Jan 30, 2020

The data are in!

We finally got the sequencing data back from Zymo, and it looks like we've got good coverage for bacteria and yeasts in all samples. It's going to take us a while to unpack all of this stuff and t...

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Published on Dec 19, 2019

Long time, no update

Happy holidays everyone! I apologize for the lack of updates over the past few months. The Fall semester here at Indiana University has been a killer, and it turns out that having 1-year-old twin...

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Published on Sep 17, 2019

First milestone, check!

Hey all,I just wanted to let you know that we've gotten our 21 samples (and more!), so we can soon begin to process everything for deep sequencing. We're waiting to hear back from one last donor be...

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Published on Aug 26, 2019

Sample submissions

Hey everyone,Experiment.com has collected your donations, is sending us a check, and we're nearing our first project milestone, which is the anticipated collection of 21+ samples by September 1. W...

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Published on Aug 02, 2019

Let's get this party started.

Hey everyone, this is a backers-only note. Thank you once again for your help funding the project. From what I understand, Experiment.com has already started to collect the donations from your cr...

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Group 6 Copy 114
Published on Jul 30, 2019

Woohoo, we did it!

Thanks to some recent and generous backers, we've hit 103% of our funding goal, and the experiment will now officially run. For those of you submitting samples, there's still time to increase the ...

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This project has been over and done with for some time, but we're currently organizing the data from another one (https://experiment.com/projects/mixed-culture-metagenomics-of-the-microbes-making-sour-beer) for publication soon.
Aug 19, 2020
Mapping the sour beer microbiome
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This is great work Renan, thanks!
Mar 17, 2020
Mixed culture metagenomics of the microbes making sour beer
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Ahh, good question! Yours is Sample #20. We'll get data back to individuals soon (hopefully) and then start to get into the comparisons.
Jan 30, 2020
Mixed culture metagenomics of the microbes making sour beer
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The animated version will premier on Netflix in 2020.
Jul 08, 2019
Mixed culture metagenomics of the microbes making sour beer
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Tremendous, thank you so much!
Jul 02, 2019
Mixed culture metagenomics of the microbes making sour beer
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We aim to please 😁.
Jun 22, 2019
Mixed culture metagenomics of the microbes making sour beer
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We actually extracted DNA from sour mashes as opposed to sour beer. We used a Zymo Research kit for DNA extraction (bead beating of pelleted microbes followed by numerous spin columns to separate and clean up the nucleic acids). One could do the same thing with beer sample though.
Jul 25, 2017
Mapping the sour beer microbiome
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We unfortunately didn't have a proper "uninoculated control" throughout the whole thing because we did this over 3 rounds of experimenting with slightly different reagents (different lots and vendors of DME for example). It would have been expensive to sequence a dozen DME samples. That said, we did verify prior to the experiment that we wouldn't pick up an overwhelming amount of barley DNA in the study, so we know we're not just getting swamped out with malt DNA. Plant sequences did show up in our eukaryotic microbiomics, but that was unavoidable. I'm sort of amazed we didn't see a big signal for chloroplast and/or mitochondrial DNA in the bacterial analysis.
Apr 20, 2017
Mapping the sour beer microbiome
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We knew L.A.B. were going to be involved (and we could smell their tangy, lemony goodness during the sour mash), but we didn't know which species or what else might be there. We've got various Lactobacilli, Lactococcus, and Leuconostoc species, at least initially. The grain itself contains some nasty stuff (e.g., enteric bacteria and pseudomonads), but the L.A.B. quickly kill them off.
Nov 02, 2016
Mapping the sour beer microbiome
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Nolan, we definitely need to make the data more approachable. We're still working with Zymo so that we can do a deep dive into the data without killing ourselves, and hopefully, we can share that experience with you and the rest of the backers when we figure out a good way. Even if Experiment.com isn't set up to do what we ultimately need, I'm sure IU could host a site for the data.
Nov 01, 2016
Mapping the sour beer microbiome
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Wow, I thought I was already successful. Way to rain on my parade mom ;-)
Nov 01, 2016
Mapping the sour beer microbiome
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I told a bunch of the poster presenters about Experiment, and they were excited.
Aug 20, 2016
Mapping the sour beer microbiome
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