Lexinverts Posted June 10, 2019 Share Posted June 10, 2019 I just talked to him Friday. He’s waiting until he has enough samples for a full run for the free analysis. I think that he needs 48 total before he runs it, but he is getting close. 2 Quote Link to comment Share on other sites More sharing options...
EMeyer Posted June 10, 2019 Author Share Posted June 10, 2019 Sorry for the slow updates, been very busy. I believe I have all samples in hand for people from this forum. Still waiting on a few others. My best update is - I am nearly done with the big cycling experiment, and have a bunch of samples in hand from that! The good news thats obvious right away is that the tanks behaved very differently in terms of nutrient cycling, so it appears I was able to avoid major problems with cross contamination. I'll post real updates in the next few days... 1 1 Quote Link to comment Share on other sites More sharing options...
youcallmenny Posted August 28, 2019 Share Posted August 28, 2019 On 6/9/2019 at 8:42 PM, EMeyer said: Sorry for the slow updates, been very busy. I believe I have all samples in hand for people from this forum. Still waiting on a few others. My best update is - I am nearly done with the big cycling experiment, and have a bunch of samples in hand from that! The good news thats obvious right away is that the tanks behaved very differently in terms of nutrient cycling, so it appears I was able to avoid major problems with cross contamination. I'll post real updates in the next few days... Any update on this? 1 Quote Link to comment Share on other sites More sharing options...
obrien.david.j Posted August 28, 2019 Share Posted August 28, 2019 I'm also interested in an update. 2 Quote Link to comment Share on other sites More sharing options...
Lexinverts Posted August 29, 2019 Share Posted August 29, 2019 Good news! It took Eli a lot longer than he planned for the first round of samples, but he has them done now. He just emailed us the good news this evening. Watch this space for the results over the next few days. 3 Quote Link to comment Share on other sites More sharing options...
milesmiles902 Posted August 29, 2019 Share Posted August 29, 2019 (edited) -- Edited August 29, 2019 by milesmiles902 Quote Link to comment Share on other sites More sharing options...
milesmiles902 Posted August 29, 2019 Share Posted August 29, 2019 (edited) I'm kind of curious what bacteria or microbes they are looking for. Share your results! Edited August 29, 2019 by milesmiles902 Quote Link to comment Share on other sites More sharing options...
EMeyer Posted August 29, 2019 Author Share Posted August 29, 2019 Hi all, What a summer. I hope yours has been less hectic than mine. But despite having to invent several non trivial things along the way, and everything taking longer than it should (the sequencing facility took over 1 month to complete a 48 hour job!)... I have very good news. Every sample provided by the group worked. By which I mean, I was able to extract bacterial DNA, prepare sequencing libraries, produce high-quality sequences, and identify the bacteria they contained. Controls were clean - no detectable amplification. This gives us confidence the DNA we're analyzing came from your tank, not my hands. At every stage these samples and sequencing libraries passed quality control with flying colors; in several ways they were the highest quality amplicon libraries I've ever analyzed. The kinds of bacteria present in these samples were as expected. Most of the tanks share a common bacterial profile.... but there are a few interesting outliers, including a couple tanks that were noted as having problems (e.g. cyano) I'm out of town for a couple days but I'll post results to the website shortly after I get back. Thats how each participant will get their results. I'll also make some posts here discussing specific questions about the data.More soon! 4 Quote Link to comment Share on other sites More sharing options...
obrien.david.j Posted August 29, 2019 Share Posted August 29, 2019 Thanks for the update. I love the start up learning curve. How it’s supposed to work is never exactly how it turns out working. If there’s value, you have my permission to discuss my sample openly. Compare and contrast away. (And if you need another sample to trend over time, I’m happy to provide another any time.) Quote Link to comment Share on other sites More sharing options...
albertareef Posted August 29, 2019 Share Posted August 29, 2019 2 hours ago, obrien.david.j said: If there’s value, you have my permission to discuss my sample openly. This is an interesting point. I wonder if we could get all the PNWMAS participants to agree to having their data identified for purposes of comparison... might lead to some interesting discussion and more nuanced interpretation. I would be game (and my tank ain't all that right now). Quote Link to comment Share on other sites More sharing options...
SuncrestReef Posted August 29, 2019 Share Posted August 29, 2019 2 hours ago, albertareef said: This is an interesting point. I wonder if we could get all the PNWMAS participants to agree to having their data identified for purposes of comparison... might lead to some interesting discussion and more nuanced interpretation. I would be game (and my tank ain't all that right now). I'm fine sharing my results. (I'm not sure if there's any aquarium equivalent of HIPAA regulations? 🤣) 1 Quote Link to comment Share on other sites More sharing options...
albertareef Posted August 29, 2019 Share Posted August 29, 2019 23 minutes ago, SuncrestReef said: (I'm not sure if there's any aquarium equivalent of HIPAA regulations? 🤣) Give it time... 1 Quote Link to comment Share on other sites More sharing options...
EMeyer Posted September 5, 2019 Author Share Posted September 5, 2019 Ladies and Gentlemen, Your reports are ready - to view your own report(s), please see this link (you'll need to log in to view your report) https://aquabiomics.com/view-reports/ I will do the "your data are ready" individual emails through my website as soon as I set that up. Its just that analyzing these data and writing programs to generate these reports has been interesting and all-consuming. Web development stuff is far less interesting although necessary too. I will make a series of posts in the near future describing these reports and what we've learned. Specifically A guide to interpreting your report What have we learned about the microbiome of a typical reef tank? What have we learned about various methods for establishing the proper microbiome in a reef tank? For now I will just say this -- please remember that for this first batch of samples, the balance and diversity scores are based on comparing you all with each other. (None of my tanks were included in the "typical reef tank microbiome" database). Diversity is pretty easy to understand. Its the number of microbial types in your tank. I've also expressed this as a percentile (the diversity score) comparing your tank with everyone elses (1=most diverse tank, 0=least). Balance scores are based on comparing the abundance of different bacterial types. If your balance score is high, that means your tank's microbiome is like most other tanks. If your score is low, it means your tank is different. It is too early to say whether that is good or bad -- just different from the typical pattern. Maybe your tank is right and the typical tank is wrong! I think it will be important to consider the balance scores in the context of the health of your tank. And as we continue to build a database of healthy tanks these scores will become more diagnostic. There is some interesting stuff here. I have been too busy with coding to write up scientific stories about it, but thats coming next... for now, please enjoy your data and don't hesitate to ask questions especially if you have any difficulties accessing them... I will appreciate any and all feedback! -Eli 1 Quote Link to comment Share on other sites More sharing options...
albertareef Posted September 5, 2019 Share Posted September 5, 2019 Thanks Eli! Anxious to weed through this. BTW - not sure if you saw the comments above but we might be able to get folk in this sample to agree to identify tanks for the purposes of enhancing the comparison data - I know I would be up for it if you thought it might provide some additional data/context. And, of course, I can't remember my password... 1 Quote Link to comment Share on other sites More sharing options...
EMeyer Posted September 5, 2019 Author Share Posted September 5, 2019 Thanks, as I prepare descriptions of the results I will reach out as needed to ask about permission to share. As a default company policy it seems appropriate to preserve privacy of everyone's data, although when people are happy to share data that always helps! There are a lot of questions we can ask anonymously; e.g. many of the samples came from tanks with cyanobacteria, we can ask about signature of cyano problems without disclosing anyone's specific data. But there are a few samples that may be useful examples to discuss so I will reach out to the owners when I get to that step in writing. I greatly appreciate peoples' willingness to freely share data, that is (supposed to be ) how science progresses! 1 Quote Link to comment Share on other sites More sharing options...
SuncrestReef Posted September 5, 2019 Share Posted September 5, 2019 15 minutes ago, EMeyer said: Thanks, as I prepare descriptions of the results I will reach out as needed to ask about permission to share. As a default company policy it seems appropriate to preserve privacy of everyone's data, although when people are happy to share data that always helps! There are a lot of questions we can ask anonymously; e.g. many of the samples came from tanks with cyanobacteria, we can ask about signature of cyano problems without disclosing anyone's specific data. But there are a few samples that may be useful examples to discuss so I will reach out to the owners when I get to that step in writing. I greatly appreciate peoples' willingness to freely share data, that is (supposed to be ) how science progresses! Very cool! Do you mind if we share snippets of our reports here in this thread to compare with our fellow participants? We're a bit of a competitive bunch, so I want to show off my relatively high microbial diversity score! 🤣 1 Quote Link to comment Share on other sites More sharing options...
Lexinverts Posted September 5, 2019 Share Posted September 5, 2019 43 minutes ago, SuncrestReef said: Very cool! Do you mind if we share snippets of our reports here in this thread to compare with our fellow participants? We're a bit of a competitive bunch, so I want to show off my relatively high microbial diversity score! 🤣 One of my tanks was in the 95th percentile. Can you beat that? 😜 1 Quote Link to comment Share on other sites More sharing options...
EMeyer Posted September 5, 2019 Author Share Posted September 5, 2019 (edited) nt Edited September 5, 2019 by EMeyer 1 Quote Link to comment Share on other sites More sharing options...
SuncrestReef Posted September 5, 2019 Share Posted September 5, 2019 1 minute ago, Lexinverts said: One of my tanks was in the 95th percentile. Can you beat that? 😀 I don't want to brag, but... 2 Quote Link to comment Share on other sites More sharing options...
Lexinverts Posted September 5, 2019 Share Posted September 5, 2019 1 minute ago, EMeyer said: One person can.... Robert....I'm guessing Quote Link to comment Share on other sites More sharing options...
EMeyer Posted September 5, 2019 Author Share Posted September 5, 2019 3 minutes ago, Lexinverts said: One of my tanks was in the 95th percentile. Can you beat that? 😜 One person can... 47 minutes ago, SuncrestReef said: Very cool! Do you mind if we share snippets of our reports here in this thread to compare with our fellow participants? We're a bit of a competitive bunch, so I want to show off my relatively high microbial diversity score! 🤣 Share away, by all means. My tendency is to share everything. My wife and various employers have informed me thats not always appropriate, but what do they know? 1 Quote Link to comment Share on other sites More sharing options...
Lexinverts Posted September 5, 2019 Share Posted September 5, 2019 2 minutes ago, SuncrestReef said: I don't want to brag, but... Whoa! It's John! How did you set up that tank, John? I got my starter live rock from Robert for my 95th percentile tank. Quote Link to comment Share on other sites More sharing options...
SuncrestReef Posted September 5, 2019 Share Posted September 5, 2019 Just now, Lexinverts said: Whoa! It's John! How did you set up that tank, John? I'm guessing it was the aiptasia infestation at that stage of my tank progress that pushed me over the top! 🤣 All kidding aside, I started my tank with dry Pukani rock and Dr. Tim's bacteria. 1 Quote Link to comment Share on other sites More sharing options...
Lexinverts Posted September 5, 2019 Share Posted September 5, 2019 2 minutes ago, SuncrestReef said: I'm guessing it was the aiptasia infestation at that stage of my tank progress that pushed me over the top! 🤣 All kidding aside, I started my tank with dry Pukani rock and Dr. Tim's bacteria. Interesting. What do you keep nitrate and phosphate at in that tank? My high diversity tank is also my high nutrient tank. 1 Quote Link to comment Share on other sites More sharing options...
EMeyer Posted September 5, 2019 Author Share Posted September 5, 2019 2 minutes ago, SuncrestReef said: I'm guessing it was the aiptasia infestation at that stage of my tank progress that pushed me over the top! 🤣 All kidding aside, I started my tank with dry Pukani rock and Dr. Tim's bacteria. This forum needs a "mind blown" reaction. Cause, /mind blown My dry rock + bacteria in a bottle experimental tanks have very low scores, despite strong nitrification My gut says there is more to your success than dry rock + Dr Tims, but can't presume to know what! 1 Quote Link to comment Share on other sites More sharing options...
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