from: Nina Bednarsek to: Liqing JIANG - NOAA Affiliate cc: Errol Ronje - NOAA Federal , Richard FEELY , Alex Kozyr - NOAA Affiliate date: Apr 5, 2022, 11:10 AM subject: Re: biological data for the NOAA WCOA cruises I think Dick can help us with this. I do not have these insights. NIna from: Errol Ronje - NOAA Federal to: Nina Bednarsek cc: Richard FEELY , Liqing Jiang - NOAA Affiliate , Alex Kozyr - NOAA Affiliate date: Apr 5, 2022, 10:41 AM Hi Nina, thank you for the additional species information and consent to change the title. I don't know what physical-chemical data you are referring to, but I think Alex may have some idea, so we'll try to get some metadata from that. I cannot edit any files for you, sorry. If you want to archive these data, please edit your data files so that they have a date column and correct GPS coordinates, as requested. The "-" can be added easily in Excel, using Paste special. Here's one video that shows you how: https://youtu.be/K8GTXmGTd14 If you can reply with corrected files, I will request an accession. On Tue, Apr 5, 2022 at 10:19 AM Nina Bednarsek wrote: HI Errol, Now I am hoping for you to help me a bit to avoid all the changes. The data for the physical-chemical parameters for the same cruises have been part of the NCEI already- Dick told me they have been submitted a long time ago. Is there a chance we could link it with those files and then the problems with the longitude, dates and ID and project title. That would be ideal, as these are all the Excel files and placing the minus sign is actually non trivial (understood as a function in Excel!). All the data are for one species only, i.e. Limacina helicina. I have now specified this in the metadata spreadsheet. Yes, we can change the title as suggested in your email. PMEL contribution number 4266, I do not know OAP project ID and project title name- maybe Dick can help. But as said, this would be the same as for all the WCOA2011, 13, 16 cruises. Hope this works. Best, NIna On Tue, Apr 5, 2022 at 3:35 PM Errol Ronje - NOAA Federal wrote: Hi Nina, thanks for sending this again. I hope we can get the email issue sorted out. I've reviewed your data and have a few issues I am hoping you can address before I can request publication (see below). Alex, the variables in the Excel submission file are not entered the way we need them to be - and it may not be enough for an OCADS metadata page right away. We can prioritize the archival of the data files and NCEI metadata, then figure out the OCADS project metadata afterwards, do you agree? Alex and Liqing, if there's anything I'm overlooking here please chime in. Nina, to request an accession and get your archive a link and/or DOI as soon as possible I need you to address these issues, please: All files are missing dates. The cruise ID has the year, but each of the tows should have an associated sampling date. Please reply with 3 new files that have a date column with associated sampling dates. The 2011 file is missing the hemisphere designation for the longitude coordinates. It needs the "-" . Please fix before you send back the new file. Please send a list of pteropod species you found, if possible, to the lowest taxonomic level possible. This is very important for discoverability purposes in the future. If you don't have any finer resolution on species ID than "pteropod," that is OK, but it is not ideal Please consent to me changing your title to reflect NCEI title guidance. I suggest something like below. Please also try to identify what NOAA ships were used for the sampling. In situ observations of pteropod presence and abundance collected in Bongo nets from NOAA ships in the Pacific Ocean for the NOAA West Coast Ocean Acidification cruises from 2011 to 2016 Please provide the OAP project ID and project title name NCEI title guidance: DataType(s) (observationType(s)) collected by instrumentType(s) from [the] platform(s) in [the] seaname(s) for [the] projectName(s) from startdate to enddate On Tue, Apr 5, 2022 at 2:50 AM Nina Bednarsek wrote: Dear all, OK, as it seems from this correspondence, my emails might have been lost somehow. But just to make sure, this year alone I sent four files to you on Jan21 and Feb 1st. The same files are attached here and also emails, to make sure they safely land in your hands. Just wanted to emphasize that these are pteropod files and not Dungeness crab files. Errol mentioned that we discussed this last year (indeed) but it is actually pteropod data that requires urgent attention for this publication that does not let us submit the data after the paper was published. This step needs to be done in the phase of acceptance and before the publication. I have filled in the metadata form before, so hope this would help speed up the process. Here (again) attached all four files. Please. let me know if there is anything else I need to do at this stage. Best, NIna ---------- Forwarded message --------- From: Nina Bednarsek Date: Fri, Jan 21, 2022 at 11:01 PM Subject: biological data for the NOAA WCOA cruises To: , Cc: Richard FEELY , Dear Alex and Liqing, It's been a while since we were in touch. Finally on the path of submission of biological data from WCOA 2011-2016 cruises. Following your previous emails on how to do it, I have now constructed a metadata and three files of biological data (pteropod abundances) for the year 2011, 2013 and 2016. All the data for the cruise have already been submitted by Dick with all relevant physical-chemical parameters. This dataset here is just to complement the existing submitted dataset that have the same identifiers in lat, long and station_ID. I hope this is feasible just to get the Accession number that we need as we have accepted MS now and need this to finalize this step. Thanks so much for all help. Best, Nina from: Errol Ronje - NOAA Federal to: Richard Feely cc: Nina Bednarsek , Liqing Jiang - NOAA Affiliate , Alex Kozyr - NOAA Affiliate date: Apr 4, 2022, 7:14 PM subject: Re: URGENT biological data for the NOAA WCOA cruises Nina, I went through some emails from last year and found the attached. Is it what you want to archive now? On Mon, Apr 4, 2022 at 3:54 PM Errol Ronje - NOAA Federal wrote: Dr. Feely and Nina, Please reply to this email with your data file(s) and the attached Excel spreadsheet completed with the metadata. As soon as I review your data and determine it is acceptable to archive at NCEI, I will request an accession be created. That will trigger the creation of a relatively stable link that you can use in the interim before your DOI is minted. On Mon, Apr 4, 2022 at 2:25 PM Richard Feely wrote: Liqing, Errol and Alex: I would very much appreciate it if you would work directly with Nina to help get her important WCOA biological data into the NCEI data system as soon as possible. We are trying to get the data set published and the editors of the journal won't accept the manuscript until there is proof that the data are in the NCEI database. Any direct help with Nina would be greatly appreciated. Many thanks for your help with this effort. Best regards, Dick On 4/4/22 10:27 AM, Errol Ronje - NOAA Federal wrote: Hi Nina, I checked with Alex and Liqing, and we haven't received any communication from you this year. Perhaps it went to our spam folders. I checked my last emails from you and they are from April 2021. At that time, you requested a same-day, emergency DOI, but didn't submit the data. Please see the correspondence below. We still haven't received any data, to my knowledge. If you would like to submit data, please do so through the SDIS system here: https://data.pmel.noaa.gov/sdig/oap/Dashboard/OAPUploadDashboard.html. from: Alex Kozyr - NOAA Affiliate reply-to: Alex Kozyr - NOAA Affiliate to: Nina Bednarsek cc: Liqing JIANG - NOAA Affiliate , Errol Ronje - NOAA Federal , Sheri Phillips - NOAA Federal , Richard Feely date: Apr 5, 2021, 7:58 AM Nina, Please, submit all the data files and we will go from there. Thank you, Alex. Alex Kozyr NOAA Affiliate NCEI/OCADS Ocean Carbon Data Analyst 10715 Eagle Glen Drive Knoxville, Tennessee 37922 phone: 865-2164499 email: alex.kozyr@noaa.gov Web: https://www.nodc.noaa.gov/ocads/ Monday, April 5, 2021, 4:12 AM -0400 from Nina Bednarsek : HI Alex, Thanks for this. If this format works , I will submit additional data as well, yes. Best, Nina From: Alex Kozyr - NOAA Affiliate Sent: Friday, April 2, 2021 3:42 PM To: Nina Bednarsek Cc: Liqing JIANG - NOAA Affiliate ; Errol Ronje - NOAA Federal ; Sheri Phillips - NOAA Federal ; Richard Feely Subject: Re[2]: advice on data needed from our paper Hi Nina, I will take a close look at the data file and metadata form on Monday. Just one question: is this only data file that will be archived in this accession or you will send some more? Thank you and have a nice weekend. Alex. Alex Kozyr NOAA Affiliate NCEI/OCADS Ocean Carbon Data Analyst 10715 Eagle Glen Drive Knoxville, Tennessee 37922 phone: 865-2164499 email: alex.kozyr@noaa.gov Web: https://www.nodc.noaa.gov/ocads/ Friday, April 2, 2021, 6:29 PM -0400 from Nina Bednarsek : Ok, thanks Alex for this- makes much more sense. I filled in as much as I could and what is relevant at this very stage. There are some more data but I want to 1) first make sure that this is correct; and 2) respond to the urgency of dissolution data (the other bio parameters can wait). Here attached: 1) filled in the spreadsheet (mimicking Hurst) and 2) attached data referred to in the spreadsheet. We somehow also have to make a refence to an already submitted chem data set from NECI by R Feely from 2016 WCOA cruise. I hope this is sufficient at this stage and we can at least start the process with biological data submission that are the most relevant at this point. Please, let me know how to proceed. Best, Nina From: Alex Kozyr - NOAA Affiliate Sent: Friday, April 2, 2021 1:20 PM To: Nina Bednarsek Cc: Liqing JIANG - NOAA Affiliate ; Errol Ronje - NOAA Federal ; Sheri Phillips - NOAA Federal ; Richard Feely Subject: Re: advice on data needed from our paper Nina, All the questions that I listed in my previous email are in the SubmissionForm_carbon_v1_NB.xlsx file (Metadata form) that you sent to me today. Just fill out the form as much as you can. Attached is an example metadata file from a different biological study for you to use. This example data set is published here: https://www.ncei.noaa.gov/data/oceans/ncei/ocads/metadata/0125007.html You did not send me any data files yet. How many variables in the data file that we are going to archive? Sorry about confusion. Alex. On Fri, Apr 2, 2021 at 4:01 PM Nina Bednarsek wrote: not files but data sheets, apologies From: Nina Bednarsek Sent: Friday, April 2, 2021 12:56 PM To: Alex Kozyr - NOAA Affiliate Cc: Liqing JIANG - NOAA Affiliate ; Errol Ronje - NOAA Federal ; Sheri Phillips - NOAA Federal ; Richard Feely Subject: Re: advice on data needed from our paper HI Alex, This is what I thought was strange and awkward because it did not ask for any such info in the meta-data file. Not even sure I would put all the names for this or how to submit the numbers related to this- I think the form is of much better use for chemistry. Where do I put all the info you requested? Are there any other files I could use? Thanks, nina From: Alex Kozyr - NOAA Affiliate Sent: Friday, April 2, 2021 11:45 AM To: Nina Bednarsek Cc: Liqing JIANG - NOAA Affiliate ; Errol Ronje - NOAA Federal ; Sheri Phillips - NOAA Federal ; Richard Feely Subject: Re: advice on data needed from our paper Hi Nina, I looked at the metadata form that you attached, and it practically has no information that we need in order to archive the data. You just described one variable at the end of the form. In the form you need to list all PIs that participated in the study and you would like them to be included in the citation, their full names and affiliations. The Title and Abstract should be also filled in, as well as the purpose of the study, dates of the study, when it began and finished, or dates of the samplings. We also need to know the sample locations (unless you will have all sampling locations listed as coordinates in the data file(s), did you use any platform to get samples for the study, if yes, what is platform name, what cruise, any other information that you would like data users to know about this study, any references. How many variables in the data file? You need to list all of them in the form. I also would need to look at the data file(s) that will be archived. Sorry about the long list, but it should be filled up in the form in order to archive the data. Thank you, Alex. On Fri, Apr 2, 2021 at 2:26 PM Nina Bednarsek wrote: Dear all again, Given that this is a submission of biological data, filling in the meta-data file is a bit 'awkard'. I have tried my best. Here attached and apologies if this is not sufficient ((but it hopefully is). Please, let me know how to proceed. Best, Nina From: Nina Bednarsek Sent: Friday, April 2, 2021 11:00 AM To: Alex Kozyr - NOAA Affiliate ; Liqing JIANG - NOAA Affiliate Cc: Errol Ronje - NOAA Federal ; Sheri Phillips - NOAA Federal ; Richard Feely Subject: Re: advice on data needed from our paper Hi Alex, Apologies for this late response, I had a never-ending meeting that I could not stop. So, here the info: Abstract title: Exoskeleton dissolution with mechanoreceptor damage in larval Dungeness crab related to severity of present-day ocean acidification vertical gradients Abstract: Coastal habitats with the steepest ocean acidification gradients are most detrimental for larval Dungeness crabs. Severe carapace dissolution was observed in larval Dungeness crabs along the US west coast, particularly in OR and WA waters. Mechanoreceptors with important sensory and behavioral functions were destabilized. Dissolution is negatively related to the growth. 10% dissolution increase over the last two decades estimated due to atmospheric CO2. Metadata coming in the next 30 min. Thank you so much!! NIna From: Alex Kozyr - NOAA Affiliate Sent: Friday, April 2, 2021 5:34 AM To: Liqing JIANG - NOAA Affiliate Cc: Errol Ronje - NOAA Federal ; Sheri Phillips - NOAA Federal ; Nina Bednarsek ; Richard Feely Subject: Re: advice on data needed from our paper Hi Nina, Could you please send me at least a title and an abstract for the data set that you are going to submit and I will obtain the Accession number. For the metadata landing page please fill out the Metadata submission form that you can download from https://www.ncei.noaa.gov/access/ocean-carbon-data-system/submit_data.html In the form, please describe the sampling information, if it was during the cruise, we need information on the platform name, cruise name and EXPOCODE, days, locations and other information in the metadata form. Please, describe all variables in the data set. Please, let me know if you have any questions. Thank you, Alex. On Fri, Apr 2, 2021 at 7:43 AM Liqing JIANG - NOAA Affiliate wrote: Hi Alex and Sheri, Good morning. My friend, Nina, needs some urgent help to publish a data set. Would you please look out for a possible data submission from her today and expedite the processing of it? Many thanks! Alex, It will be a biological data set. Unfortunately, Errol is out of office today until next Wednesday. I'd appreciate it very much if you could step in. Nina, We'll try our best to expedite it, but please note that data publication at NCEI is a time consuming process. After we prepare the metadata, controlled vocabularies, and some extra steps for the data files, we'll have to work with our data officers (DO) for a review process in order to publish a data set at NCEI. It normally takes weeks to get a data set published. My hope is that this can be done by COB next Monday, depending on Alex and Sheri's schedule and when you could bring the data in. That said, if what you need is just an NCEI Accession ID, we could provide to you today. Liqing ---------- Forwarded message --------- From: Nina Bednarsek Date: Fri, Apr 2, 2021 at 7:02 AM Subject: Re: advice on data needed from our paper To: Liqing JIANG - NOAA Affiliate Cc: ncei.info@noaa.gov , Richard Feely Oh, please, total emergency, like today- and I am very sorry for this. Thank you so much for your help, Liqing! Get Outlook for Android From: Liqing JIANG - NOAA Affiliate Sent: Friday, April 2, 2021 12:59:13 PM To: Nina Bednarsek Cc: ncei.info@noaa.gov ; Richard Feely Subject: Re: advice on data needed from our paper Hi Ninia, You're welcome! Please prepare your submission by following instructions on this page: https://www.nodc.noaa.gov/oads/stewardship/submission.html Here is a previously submitted data set from Tom Hurst, in case you find it helpful: https://www.ncei.noaa.gov/data/oceans/ncei/ocads/metadata/0125007.html If this is an urgency to have your data set published, I'll talk to my colleague to try to expedite it. Liqing On Fri, Apr 2, 2021 at 3:25 AM Nina Bednarsek wrote: Thanks so much! Ah, shame this means that it definitely was not submitted. I will aim to submit it today, hope I can find all the documents online for this. Are tehre any templates for this? From: Liqing JIANG - NOAA Affiliate Sent: Thursday, April 1, 2021 4:36 PM To: Nina Bednarsek Cc: ncei.info@noaa.gov ; Richard Feely Subject: Re: advice on data needed from our paper Hi Nina and Dick, Sorry for the late response. I'm out of office today. I did a quick search using your last name and only this one came up: https://www.ncei.noaa.gov/data/oceans/ncei/ocads/metadata/0155173.html Do you have more information about the data set? Who submitted it? Any other keywords I can use to search for the data set? You can also try to locate the data set using this portal: https://www.ncei.noaa.gov/access/oads/ Liqing On Thu, Apr 1, 2021 at 5:27 PM Nina Bednarsek wrote: Dear Liqing, With Dick, we need to act super fast at one request for the chem-bio data submission and Dick asked me to contact you about this. When our Dungeness crab study was submitted(2020), we submitted data to NCEI, but we are not sure if biological data was submitted along the chemical data as well. Could you please check this asap? If this was not the case, we need to submit by tomorrow so I would greatly appreciate your fast response. Best wishes, Nina, Dick On Mon, Apr 4, 2022 at 12:08 PM Nina Bednarsek wrote: Dear Liquing I would need your help quite urgently. In order for our paper to be accepted, I would need this data to be put into NCEI and the link generated so that I can put it into the paper. I tried several times in the past to make this happen but now it is really urgent as we cannot proceed with our accepted article going into publication stage. I would greatly appreciate your help. Best, Nina On Tue, Feb 1, 2022 at 11:50 AM Nina Bednarsek wrote: Dear all, Some time ago, I sent the email below, hoping we could start the submission of the biological data from WCOA cruises. I have not heard back from you but hoping we could start it soon so I could get the link to the data access that I need to provide for the paper. Please, let me know what would be additional steps at this point. Best, Nina ---------- Forwarded message --------- From: Nina Bednarsek Date: Fri, Jan 21, 2022 at 11:01 PM Subject: biological data for the NOAA WCOA cruises To: , Cc: Richard FEELY , Dear Alex and Liqing, It's been a while since we were in touch. Finally on the path of submission of biological data from WCOA 2011-2016 cruises. Following your previous emails on how to do it, I have now constructed a metadata and three files of biological data (pteropod abundances) for the year 2011, 2013 and 2016. All the data for the cruise have already been submitted by Dick with all relevant physical-chemical parameters. This dataset here is just to complement the existing submitted dataset that have the same identifiers in lat, long and station_ID. I hope this is feasible just to get the Accession number that we need as we have accepted MS now and need this to finalize this step. Thanks so much for all help. Best, Nina