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Updated: Oct 1, 2025

Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations

Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations

Published on: December 7, 2021

Paths towards greater consensus building in experimental biology.

Dominique G Roche^1,2, Graham D Raby³, Tommy Norin⁴

¹Canadian Centre for Evidence-Based Conservation, Department of Biology and Institute of Environmental and Interdisciplinary Science, Carleton University, Ottawa, ON, Canada, K1S 5B6.

The Journal of Experimental Biology

|March 8, 2022

Summary

Experimental biology needs more open data and code sharing to build consensus on climate change impacts. Adopting FAIR data principles enhances transparency and cross-disciplinary integration for better conservation strategies.

Keywords:

Behavioural ecology Comparative physiology GOLT OCLTT Ocean acidification Open data Transdisciplinary Transparency

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Area of Science:

Experimental biology
Climate change research
Open science practices

Background:

Climate change presents urgent scientific challenges requiring consensus building and interdisciplinary integration.
Reproducible research is crucial for understanding climate change effects on organisms and informing conservation.

Purpose of the Study:

To investigate reproducible research practices in experimental biology.
To assess the availability of open data and analysis code in published studies.
To evaluate the adoption of open science principles like FAIR data.

Main Methods:

Reviewed empirical studies on debated climate change paradigms and unrelated studies in leading journals.
Examined open data and analysis code availability over the past 10 years.
Calculated percentages of studies with open data and code.

Main Results:

Only 19% of studies on debated paradigms and 12.1% of general studies had open data.
Open code availability was low (3.2% and 3.1% respectively).
Usable open data may be available for fewer than 10% of studies, but open practices are increasing.

Conclusions:

Increasing adoption of open science, particularly FAIR data and code, is vital for experimental biology.
Enhanced transparency and cross-disciplinary integration improve consensus building in climate change research.
Open science maximizes the contribution of experimental biologists to addressing environmental change impacts on organisms.