A practical guide to question formation, systematic searching and study screening for literature reviews in ecology and evolution

Foo, Yong Zhi; O’Dea, Rose E.; Koricheva, Julia; Nakagawa, Shinichi; Lagisz, Malgorzata

doi:10.1111/2041-210x.13654

Cited by 83 publications

(55 citation statements)

References 62 publications

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“…The references cited in publications have also been retrieved. Two researchers (Shanwei Wu and Xianni Chen) independently performed the search strategy ( Note S ) following the methods in Foo et al (2021) . All discrepancies were resolved through discussion with each other or consultation with a 3rd reviewer (Zhaoyong Shi).…”

Section: Methodsmentioning

confidence: 99%

Arbuscular mycorrhizal fungi increase crop yields by improving biomass under rainfed condition: a meta-analysis

Shi

Chen

et al. 2022

PeerJ

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Background Rainfed agriculture plays key role in ensuring food security and maintain ecological balance. Especially in developing areas, most grain food are produced rainfed agricultural ecosystem. Therefore, the increase of crop yields in rainfed agricultural ecosystem becomes vital as well as ensuring global food security. Methods The potential roles of arbuscular mycorrhizal fungi (AMF) in improving crop yields under rainfed condition were explored based on 546 pairs of observations published from 1950 to 2021. Results AMF inoculation increased 23.0% crop yields based on 13 popular crops under rainfed condition. Not only was crop biomass of shoot and root increased 24.2% and 29.6% by AMF inocula, respectively but also seed number and pod/fruit number per plant were enhanced markedly. Further, the effect of AMF on crop yields depended on different crop groups. AMF improved more yield of N-fixing crops than non-N-fixing crops. The effect of AMF changed between grain and non-grain crops with the effect size of 0.216 and 0.352, respectively. AMF inoculation enhances stress resistance and photosynthesis of host crop in rainfed agriculture. Conclusion AMF increased crop yields by enhancing shoot biomass due to the improvement of plant nutrition, photosynthesis, and stress resistance in rainfed field. Our findings provide a new view for understanding the sustainable productivity in rainfed agroecosystem, which enriched the theory of AMF functional diversity. This study provided a theoretical and technical way for sustainable production under rainfed agriculture.

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Section: Methodsmentioning

confidence: 99%

Arbuscular mycorrhizal fungi increase crop yields by improving biomass under rainfed condition: a meta-analysis

Shi

Chen

et al. 2022

PeerJ

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“…First, we performed a search on the specialized search engines Scopus (www.scopus.com) and Web of Science (www.webofscience.com) to find literature referring to TreMs. Identifying the relevant keywords for the search is a key part of this step (Atkinson and Cipriani, 2018;Foo et al, 2021). A wide diversity of terms, however, has been used to refer to TreMs before the terminology became more homogenized in recent years.…”

Section: Systematic Reviewmentioning

confidence: 99%

Tree-Related Microhabitats Are Promising Yet Underused Tools for Biodiversity and Nature Conservation: A Systematic Review for International Perspectives

Martin

Paillet²,

Larrieu

et al. 2022

Front. For. Glob. Change

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Sustainable management of forest ecosystems requires the use of reliable and easy to implement biodiversity and naturalness indicators. Tree-related microhabitats (TreMs) can fulfill these roles as they harbor specialized species that directly or indirectly depend on them, and are generally more abundant and diverse in natural forests or forests unmanaged for several decades. The TreM concept is however still recent, implying the existence of many knowledge gaps that can challenge its robustness and applicability. To evaluate the current state of knowledge on TreMs, we conducted a systematic review followed by a bibliometric analysis of the literature identified. A total of 101 articles constituted the final corpus. Most of the articles (60.3%) were published in 2017 or after. TreM research presented a marked lack of geographical representativity, as the vast majority (68.3%) of the articles studied French, German or Italian forests. The main themes addressed by the literature were the value of TreMs as biodiversity indicators, the impact of forest management on TreMs and the factors at the tree- and stand-scales favoring TreMs occurrence. Old-growth and unmanaged forests played a key role as a “natural” forest reference for these previous themes, as TreMs were often much more abundant and diverse compared to managed forests. Arthropods were the main phylum studied for the theme of TreMs as biodiversity indicators. Other more diverse themes were identified, such as restoration, remote sensing, climate change and economy and there was a lack of research related to the social sciences. Overall, current research on TreMs has focused on assessing its robustness as an indicator of biodiversity and naturalness at the stand scale. The important geographical gap identified underscores the importance of expanding the use of the TreMs in other forest ecosystems of the world. The notable efforts made in recent years to standardize TreM studies are an important step in this direction. The novelty of the TreM concept can partially explain the thematic knowledge gaps. Our results nevertheless stress the high potential of TreMs for multidisciplinary research, and we discuss the benefits of expanding the use of TreMs on a larger spatial scale.

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“…We searched the Scopus database between 16 and 18 May 2021, with a follow-up search on 1 September 2021 (see the supplementary information at https://daniel1noble.github.io/ nuisance_heterogeneity/). After a series of pilot searches to refine our search string (see Foo et al, 2021 for an overview of this process), we searched for studies that included: 'meta-analysis', 'meta regression', 'comparative analysis', 'comprehensive analysis', 'global analysis' or 'macro physiology' in their title or abstract. We restricted our search to key comparative physiology journals known to the authors that would likely contain literaturebased quantitative syntheses within the last 6 years (detailed in the supplemental tables at https://daniel1noble.github.io/nuisance_ heterogeneity/).…”

Section: Nuisance Heterogeneity Complicates Meta-analytic Interpretat...mentioning

confidence: 99%

Meta-analytic approaches and effect sizes to account for ‘nuisance heterogeneity’ in comparative physiology

Noble

Pottier

Lagisz

et al. 2022

Journal of Experimental Biology

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Meta-analysis is a powerful tool used to generate quantitatively informed answers to pressing global challenges. By distilling data from broad sets of research designs and study systems into standardised effect sizes, meta-analyses provide physiologists with opportunities to estimate overall effect sizes and understand the drivers of effect variability. Despite this ambition, research designs in the field of comparative physiology can appear, at the outset, as being vastly different to each other because of ‘nuisance heterogeneity’ (e.g. different temperatures or treatment dosages used across studies). Methodological differences across studies have led many to believe that meta-analysis is an exercise in comparing ‘apples with oranges’. Here, we dispel this myth by showing how standardised effect sizes can be used in conjunction with multilevel meta-regression models to both account for the factors driving differences across studies and make them more comparable. We assess the prevalence of nuisance heterogeneity in the comparative physiology literature – showing it is common and often not accounted for in analyses. We then formalise effect size measures (e.g. the temperature coefficient, Q10) that provide comparative physiologists with a means to remove nuisance heterogeneity without the need to resort to more complex statistical models that may be harder to interpret. We also describe more general approaches that can be applied to a variety of different contexts to derive new effect sizes and sampling variances, opening up new possibilities for quantitative synthesis. By using effect sizes that account for components of effect heterogeneity, in combination with existing meta-analytic models, comparative physiologists can explore exciting new questions while making results from large-scale data sets more accessible, comparable and widely interpretable.

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A practical guide to question formation, systematic searching and study screening for literature reviews in ecology and evolution

Cited by 83 publications

References 62 publications

Arbuscular mycorrhizal fungi increase crop yields by improving biomass under rainfed condition: a meta-analysis

Arbuscular mycorrhizal fungi increase crop yields by improving biomass under rainfed condition: a meta-analysis

Tree-Related Microhabitats Are Promising Yet Underused Tools for Biodiversity and Nature Conservation: A Systematic Review for International Perspectives

Meta-analytic approaches and effect sizes to account for ‘nuisance heterogeneity’ in comparative physiology

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