Table of Contents

Click the title of the article you would like to see to be taken directly to that page. The .Rmd version is a version-tracked reproducible manuscript

* = undergraduate co-author

Articles: passed pre- and post-study peer review at PCI Ecology

• *Sevchik A, Logan CJ, McCune KB, Blackwell A, Rowney C, Lukas D. 2021. Investigating sex differences in genetic relatedness in great-tailed grackles in Tempe, Arizona to infer potential sex biases in dispersal. EcoEvoRxiv, https://doi.org/10.32942/osf.io/t6beh, v5. Preregistration received in principle acceptance by Peer Community in Ecology on 29 Nov 2019 (pre-study peer review history); and final manuscript was recommended on 10 Mar 2021 (post-study peer review history).
• Blaisdell AP, Seitz B, Rowney C, Folsom M, MacPherson M, Deffner D, Logan CJ. 2021. Do the more flexible individuals rely more on causal cognition? Observation versus intervention in causal inference in great-tailed grackles. PsyArXiv, https://doi.org/10.31234/osf.io/z4p6s, v5. Preregistration received in principle acceptance by Peer Community in Ecology on 31 Jan 2019 (pre-study peer review history); and final manuscript was recommended on 29 Mar 2021 (post-study peer review history).
• Logan CJ, McCune KB, MacPherson M, Johnson-Ulrich Z, Rowney C, Seitz B, Blaisdell AP, Deffner D, Wascher CAF. 2021. Are the more flexible individuals also better at inhibition?. PsyArXIv, https://doi.org/10.31234/osf.io/vpc39, v7. Preregistration received in principle acceptance by Peer Community in Ecology on 6 Mar 2019 (pre-study peer review history); and final manuscript was recommended on 4 May 2021 (post-study peer review history).

Articles: passed post-study peer review, but were never preregistrations

• Seitz BM, McCune KB, MacPherson M, Bergeron LM, Blaisdell AP, Logan CJ. 2021. Using touchscreen equipped operant chambers to study comparative cognition. Benefits, limitations, and advice. PLOS ONE 16(2): e0246446. bioRxiv preprint, data

Post-study articles: passed pre-study peer review at PCI Ecology & currently in post-study peer review at PCI Ecology

• *Berens JM, Logan CJ, Folsom M, Bergeron L, McCune KB. 2019. Validating morphological condition indices and their relationship with reproductive success in great-tailed grackles. (http://corinalogan.com/Preregistrations/gcondition.html) In principle acceptance by PCI Ecology of the version on 8 Nov 2019 https://github.com/corinalogan/grackles/blob/master/Files/Preregistrations/gcondition.Rmd. EcoEvoRxiv. Pre-study peer review history.

Preregistrations: passed pre-study peer review at PCI Ecology

1. Logan CJ, Breen AJ, MacPherson M, Rowney C, Bergeron L, Seitz B, Blaisdell AP, Folsom M, Johnson-Ulrich Z, Sevchik A, McCune KB. 2019. Is behavioral flexibility manipulatable and, if so, does it improve flexibility and problem solving in a new context? (http://corinalogan.com/Preregistrations/g_flexmanip.html) In principle acceptance by PCI Ecology of the version on 26 Mar 2019 https://github.com/corinalogan/grackles/blob/master/Files/Preregistrations/g_flexmanip.Rmd. Pre-study peer review history.

2. McCune KB, Breen AJ, MacPherson M, Rowney C, Bergeron L, Folsom M, Deffner D, Logan CJ. 2019. Is behavioral flexibility linked with exploration, but not boldness, persistence, or motor diversity? (http://corinalogan.com/Preregistrations/g_exploration.html) In principle acceptance by PCI Ecology of the version on 27 Mar 2019 https://github.com/corinalogan/grackles/blob/master/Files/Preregistrations/g_exploration.Rmd. Pre-study peer review history.

3. Logan CJ, Lukas D, LeGrande-Rolls C, Bergeron L, Folsom M, Marfori Z, McCune KB. 2019. Is behavioral flexibility related to foraging and social behavior in a rapidly expanding species? (http://corinalogan.com/Preregistrations/g_flexforaging.html) In principle acceptance by PCI Ecology of the version on 6 Aug 2019 https://github.com/corinalogan/grackles/blob/master/Files/Preregistrations/g_flexforaging.Rmd. Pre-study peer review history.

• D) McCune KB, McElreath R, Logan CJ. 2019. Investigating the use of learning mechanisms in a species that is rapidly expanding its geographic range. (http://corinalogan.com/Preregistrations/g_sociallearning.html). In principle acceptance by PCI Ecology of the version on 11 Oct 2019 https://github.com/corinalogan/grackles/blob/master/Files/Preregistrations/g_sociallearning.Rmd. Pre-study peer review history.

• H) Folsom MA, Lukas D, MacPherson M, McCune KB, Bergeron L, Bond A, Blackwell A, Rowney C, Logan CJ. 2020. Repeated parental care by adult male great-tailed grackles and its association with hormones, fitness, specific populations, and mating strategies. (http://corinalogan.com/Preregistrations/gmalecare.html) In principle acceptance by PCI Ecology of the version on 15 Jun 2020 https://github.com/corinalogan/grackles/blob/master/Files/Preregistrations/gmalecare.Rmd. Pre-study peer review history.

• E) McCune KB, Ross C, LeGrande-Rolls C, Folsom M, Bergeron L, Logan CJ. 2020. Does great-tailed grackle space use behavior reflect individual differences in exploration? In principle acceptance by PCI Ecology of the version on 23 Sep 2020 https://github.com/corinalogan/grackles/blob/master/Files/Preregistrations/gspaceuse.Rmd. Pre-study peer review history.

• I) Logan CJ, McCune KB, Breen AJ, Marfori Z, LeGrande-Rolls C, Summers J, Chen N, Lukas D. 2020. Implementing a rapid geographic range expansion - the role of behavior and habitat changes. In principle acceptance by PCI Ecology of the version on 6 Oct 2020 https://github.com/corinalogan/grackles/blob/master/Files/Preregistrations/gxpopbehaviorhabitat.Rmd. Pre-study peer review history.

Preregistrations

(Note: preregistrations A-C were reviewed as part of the causal cognition preregistration peer review by Reviewer 1)

• A) Logan CJ, Rowney C, Bergeron L, McCune K, MacPherson M, Bond A, Blackwell A, Escalante A, Pacheco M. 2018. What are the costs and constraints of behavioral flexibility in great-tailed grackles? (.Rmd version).

• B) Logan CJ, Rowney C, Bergeron L, McCune K, MacPherson M, Bond A, Blackwell A, Escalante A, Pacheco M. 2018. How and why does behavioral flexibility vary across the range of a rapidly expanding species? (.Rmd version).

• C) Logan CJ, Rowney C, Bergeron L, McCune K, Bond A, Blackwell A, Lukas D. 2018. The genetics of behavioral flexibility across the range of a rapidly expanding species. (.Rmd version).

Preregistrations are study plans that are written before the data are collected (or before analyzing the data when using data that already exist). We get them peer reviewed before we conduct the study to ensure that we get the most out of the resources we invest by correcting any issues before they arise. Additionally, once a preregistration has passed pre-study peer review, it is almost guaranteed to be published upon a quick post-study peer review, which checks to make sure we did what we said we were going to do and if there were any deviations, that these deviations maintain the scientific validity of the work.

Note: full references are listed in MyLibrary.bib

Open Materials

• Multiaccess box (3D printer and laser cutter) for Is behavioral flexibility manipulatable and, if so, does it improve flexibility and problem solving in a new context?

• PsychoPy2 code for touchscreen experiments

• Protocol: nest checks to collect indicators of nest building, egg laying behavior, nestling and fledgling presence, and nest failure

• Protocol: biometrics

How to increase safety when using the bownet trapping method

• Bownet deployment protocol
• Bownet training checklist
• Bownet training tracking data sheet
• Poster presented by Luisa Bergeron at the American Ornithological Society meeting in June 2019 in Alaska

Citation: Bergeron L & Logan CJ. 2019. Modifications to the bownet trapping method to increase safety for medium-sized, agile birds. American Ornithological Society Meeting, Alaska.

The Grackle Project

Many experiments will be conducted over the next several years and I post the reproducible manuscripts (.Rmd files including text and code) here. Each investigation (a group of hypotheses) has one .Rmd file that goes through different versions. It starts off as a PREREGISTRATION where I list the hypotheses, predictions, methods, and analysis plan BEFORE any data are collected. In most cases, the preregistration will undergo pre-study peer review at PCI Ecology, then the study will be conducted, and the resulting articles will undergo post-study peer review at PCI Ecology.

The version is noted in the Commit comment, and the different versions can be seen in the History of the file of interest. Following the version history of ONE file allows one to track how this piece of work has changed through the entire investigation.

5-year Project Overview

The same individuals will experience the experiments listed in each column (i.e., the same ~32 individuals in the left column (Years 1 and 2) will experience numbers 1-5 and A-D, and the same ~32 individuals in the right column (Years 3-5) will experience I-IV, plus number 5 and A-D). Year 1 started in September 2018.

License

CC-BY-SA 4.0: share alike and attribute the original source using the citations above