the Creative Commons Attribution 4.0 License.
the Creative Commons Attribution 4.0 License.
Computation of Self-recruitment in Fish Larvae using Forward- and Backward-in-Time Particle Tracking in a Lagrangian Model (SWIM-v2.0) of the Simulated Circulation of Lake Erie (AEM3D-v1.1.2)
Abstract. Accurately estimating self-recruitment (SR), the fraction of recruits in a location that originated locally, is critical for understanding population connectivity. Biophysical models have been typically applied to compute SR by releasing a certain number of larval particles from each assumed source location and tracking them forward in time. However, various strategies have been employed for releasing these larval particles: including randomly, consistently, or a number proportional to the location’s area or larval production, which causes ambiguous results. We demonstrate, using theoretical arguments and numerical simulations from Lake Whitefish (Coregonus clupeaformis) larvae in Lake Erie, that SR depends on larval production at each source location. This dependency suggests that SR may not be computed unambiguously in these models unless realistic larval production is released from all potential source locations. In contrast, parentage analysis studies typically computed SR by assessing the fraction of sampled juveniles that originate locally at a settlement location, instead of identifying larval production at all sources. Therefore, tracking larval particles backward from the settlement location is proposed as a straightforward approach for computing SR. Our findings demonstrate that SR is independent of the number of larval recruits at the settlement location, supporting the employment of backtracking models with randomly released larval particles. In this way, considerable effort and resources, that would otherwise be spent on identifying all potential sources and their larval output, in forward tracking can be saved. We believe this result will have important implications for studies on larval dispersal and recruitment in aquatic systems.
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Status: open (until 20 May 2025)
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CEC1: 'Comment on gmd-2024-215', Juan Antonio Añel, 09 Apr 2025
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Dear authors,
I have to point out a couple of minor issues regarding the replicability of your manuscript, and therefore the compliance with the policy of the journal. First, it would be good that you indicate the exact Matlab version that you have used in your work. This is important to be able of tracking back the implementation of some algorithms, routines or functions that you could have used. Also, it is necessary to be able to track the potential impact on your work of bugs that could be discovered in Matlab in the future, as has happened in the past with many others.
As you use Matlab, I understand that your code is in the M Language. I have not seen among the assets published in the Zenodo repositories such code, but a bunch of binary .mat files. I ask you to publish these files in a format that is not proprietary and binary, and can be accessed without using a proprietary software such as Matlab. Please, do it.
Additionally, if your code can be run with free software, such as GNU Octave (it would be desirable that it is), you should note it. Please, check it.
Juan A. Añel
Geosci. Model Dev. Executive Editor
Citation: https://doi.org/10.5194/gmd-2024-215-CEC1 -
AC1: 'Reply on CEC1', wei shi, 17 Apr 2025
reply
First, it would be good that you indicate the exact Matlab version that you have used in your work. This is important to be able of tracking back the implementation of some algorithms, routines or functions that you could have used. Also, it is necessary to be able to track the potential impact on your work of bugs that could be discovered in Matlab in the future, as has happened in the past with many others.
Response: We thank the Chief Editor for the review. We used version R2024a and we have noted it in the manuscript.
As you use Matlab, I understand that your code is in the M Language. I have not seen among the assets published in the Zenodo repositories such code, but a bunch of binary .mat files. I ask you to publish these files in a format that is not proprietary and binary, and can be accessed without using a proprietary software such as Matlab. Please, do it.
Response: All the data and code (as well as a "read me.docx" file) have been published in .txt formate and are publicly available at https://zenodo.org/records/15222144, readers can access these files through the free softward notepad++.
Additionally, if your code can be run with free software, such as GNU Octave (it would be desirable that it is), you should note it. Please, check it.
Response: We have added the following to the code section of the manuscript: The SWIM-v2.0 model was implemented in MATLAB R2024a using standard functions and without reliance on specialized toolboxes. While we have not explicitly tested the code in GNU Octave, we expect that it should run in Octave without or with only minor modifications. Users are welcome to adapt the code for use with Octave or other compatible environments.
Citation: https://doi.org/10.5194/gmd-2024-215-AC1 -
CEC2: 'Reply on AC1', Juan Antonio Añel, 18 Apr 2025
reply
Dear authors,
Many thanks for your reply, and for caring about improving the replicability of the manuscript.
Juan A. Añel
Geosci. Model Dev. Executive Editor
Citation: https://doi.org/10.5194/gmd-2024-215-CEC2
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CEC2: 'Reply on AC1', Juan Antonio Añel, 18 Apr 2025
reply
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AC1: 'Reply on CEC1', wei shi, 17 Apr 2025
reply
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