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Global research trends in microbiome-gut-brain axis during 2009–2018: a bibliometric and visualized study

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The pathways and mechanism by which associations between the gut microbiome and the brain, termed the microbiome-gut-brain axis (MGBA), are manifest but remain to be fully elucidated. This study aims to use bibliometric analysis to estimate the global activity within this rapidly developing field and to identify particular areas of focus that are of current relevance to the MGBA during the last decade (2009–2018).


The current study uses the Scopus for data collection. We used the key terms “microbiome-gut-brain axis” and its synonyms because we are concerned with MGBA per se as a new concept in research rather than related topics. A VOSviewer version 1.6.11 was used to visualize collaboration pattern between countries and authors, and evolving research topics by analysis of the term co-occurrence in the title and abstract of publications.


Between 2009 and 2018, there were 51,504 published documents related to the microbiome, including 1713 articles related to the MGBA: 829 (48.4%) original articles, 658(38.4%) reviews, and 226 (13.2%) other articles such as notes, editorials or letters. The USA took the first place with 385 appearances, followed by Ireland (n = 161), China (n = 155), and Canada (n = 144).The overall citation h-index was 106, and the countries with the highest h-index values were the USA (69), Ireland (58), and Canada (43). The cluster analysis demonstrated that the dominant fields of the MGBA include four clusters with four research directions: “modeling MGBA in animal systems”, “interplay between the gut microbiota and the immune system”, “irritable bowel syndrome related to gut microbiota”, and “neurodegenerative diseases related to gut microbiota”.


This study demonstrates that the research on the MGBA has been becoming progressively more extensive at global level over the past 10 years. Overall, our study found that a large amount of work on MGBA focused on immunomodulation, irritable bowel syndrome, and neurodevelopmental disorders. Despite considerable progress illustrating the communication between the gut microbiome and the brain over the past 10 years, many issues remain about their relevance for therapeutic intervention of many diseases.


The interaction between gut and brain has been acknowledged by physicians since antiquity [1]. As far back as the sixteenth century, the association between depression and altered bowel function was recognized and in 1978 Manning and his colleagues described the “irritable bowel syndrome (IBS)” as a gastrointestinal condition which is strongly associated with psychological stress, some authors reporting 50% of sufferers have comorbid depression or anxiety [2]. The pathways and mechanism by which these associations are manifest remain to be fully elucidated. However, recent developments in genome sequencing, metabolomics, functional imaging and computational biology have increased our understanding considerably [3,4,5,6].

The rapid development of 16S ribosomal RNA and whole genome sequencing analysis has enabled us to understand the diverse nature of the microbial symbionts that inhabit our gastrointestinal tract [7,8,9]. Metabolomics is beginning to explain how those microbes produce a range of molecules that impact our behaviors and perceptions. The changes in our microbial diversity, manifest as changes in their metabolic output appear to alter the development of multiple facets of the enteric and central nervous systems including astrocytes, microglial cells and neurons [10, 11]. Functional imaging, functional magnetic resonance imaging and magneto encephalography, have enabled us to identify real time changes in neurological activity and correlate these with changes in behavior or perception [12,13,14]. Advances in computational biology are beginning to explain how these multifaceted and complex systems interact with each other [15, 16].

The microbiota interacts with the host through their effect on immune, neuro-hormonal and neural pathways. They have been shown to impact a broad range of disease, including neurodegenerative disorders, such as multiple sclerosis and Parkinson’s disease, auto-immune disease and obesity [17, 18]. The gastrointestinal microbiome has also been shown to influence behavior in mammals and man [19, 20]. Transfer of feces from depressed humans to microbiota depleted rats led the recipient rats to display behaviors analogous to depression in the human (anhedonia and anxiety like behaviors) [21, 22]. A strain of bifidobacteria has been demonstrated to increase resilience in people with anxiety [23]. These findings were not observed when healthy people consumed a strain of Lactobacillus [24]. Short chain fatty acids, propionate, butyrate and acetate, are important products of the microbiome and changes in the proportion and quantities of these products alter insulin resistance, ghrelin production and presumably appetite and risk of obesity and diabetes [25, 26].

Bibliometric analyses have been used in various fields to highlight the most influential countries, authors, journals, publications, and institutions [27,28,29,30,31,32,33,34,35,36,37,38,39,40,41,42]. These include research related to microbiota [43, 44]. Worldwide, there are more than 330 clinical studies recorded on clinical with a specific focus on the microbiome. This is a growing area of importance in order to better understand the impact of specific strains on individuals, and the interaction with pre-existing microbial symbionts. Currently, there is a lack of research concerning assessment of the current status, hot spots, and future outlook on the theme of the microbiome-gut-brain axis (MGBA). This study aims to use bibliometric methods to identify particular areas of research activity in this field and to allow researchers to identify new areas for future development.


Although a large number of databases are used for evaluation research at global level [45,46,47], the current study uses the Scopus database which is widely accepted among researchers for the purposes of high quality bibliometric analyses [44, 48,49,50,51,52,53]. Scopus is the world’s largest abstract and citation database of peer-reviewed research literature, and is an established resource for identifying biomedical research including MEDLINE documents, and includes a higher level of detail than PubMed including the country of origin and citations per document [47, 54].

We used the key terms “microbiome-gut-brain axis” and its synonyms because we are concerned with microbiome-gut-brain axis per se as a new concept in research rather than related topics. Data mining was conducted on July 12, 2019. The central theme in this study was research articles containing “microbiome or microbiota and brain-gut or gut-brain” to identify items based on their search in the fields title, abstract and keyword simultaneously and the time was 10 years between 2009 and 2018.

Data analysis

VOSviewer software (, Van Eck & Waltman version 1.6.11) was used to create a visual representation of collaborations between countries and authors using network maps [55]. Creating a term co-occurrence map in VOSviewer involved only terms that occurred in the title and abstract at least 50 times under binary counting [55]. Terms with the highest relevance score were used to create a term map for network visualization. The algorithm was designed to ensure that terms that co-occurred more frequently had larger bubbles and terms that have a high similarity are located close to each other [55].

Statistical analysis was carried out for the retrieved data by the Statistical Package for the Social Sciences (version 16.0, SPSS Inc., Chicago, IL, USA). Pearson correlation Coefficient was used to test the correlation between some variables (e.g. h-index and number of publications for each country, number of publications and years, and the number of publications related to MGBA and the number of publications related to microbiome in all fields). The analyses carried out in the current study focused largely on the frequencies and percentages of publications for types of documents, countries, journals, and institutes.


Between 2009 and 2018, there were 51,504 published documents related to the microbiome, including 1713 articles related to the MGBA: 829 (48.4%) original articles, 658(38.4%) reviews, and 226 (13.2%) other articles such as notes, editorials or letters. English was the most frequently used language (n = 1648), followed by French (n = 16), and Chinese (n = 19), with these accounting for 98.2% of publications related to MGBA. Publications related to MGBA and the microbiome are represented in Fig. 1a and b, respectively. Time trend analyses show rising numbers of publications related to MGBA between 2009 and 2018 (r = 0.950; P value< 0.001), and a correlation between overall numbers of microbiome and MGBA publications (r = 0.991, p < 0.001) during the study period.

Fig. 1

Quantitative growth process of the publications concerning microbiome-gut-brain axis (a) and microbiome in all fields (b) in the period of 10 years

The term analyses maps are presented in Fig. 2: the larger circles representing frequently occurring abstract and title terms. Colors used to differentiate between 4 main topic clusters: 1. “modeling MGBA in animal systems (red cluster)”, 2. “interplay between the gut microbiota and the immune system (green cluster)”, 3. “irritable bowel syndrome related to gut microbiota (blue cluster)”, and 4. “neurodegenerative diseases related to gut microbiota (yellow cluster)”.

Fig. 2

Research topics clustered by mapping of co-occurrences of terms in title/abstract for publications related to microbiome-gut-brain axis (MGBA). Of the 30,250 terms, 179 terms occurred at least 50 times. For each of the 179 terms, a relevance score was calculated and used to select the 60% most relevant terms. In Fig. 2, the size of the circles represents the occurrences of terms in title/abstract. The largest set of connected terms consists of 107 terms in four clusters. The four clusters can be broadly interpreted as “modeling MGBA in animal systems (red cluster)”, “interplay between the gut microbiota and the immune system (green cluster)”, “irritable bowel syndrome related to gut microbiota (blue cluster)”, and “neurodegenerative diseases related to gut microbiota (yellow cluster)”

Table 1 presents the 10 most prolific countries related to MGBA publications, with the top 4 being the USA (n = 385), Ireland (n = 161), China (n = 155), and Canada (n = 144). The overall citation h-index was 106, and the countries with the highest h-index values were the USA (69), Ireland (58), and Canada (43). There is a positive modest correlation between h-index and number of published articles (r = 0.817, P-value = 0.004). Figure 3 shows the network visualization map for country collaborations, showing 35 out of a total 86 countries that had more than ten publications; the size of frame represents the number of publications, the thickness of lines signifies the extent of collaboration between the countries.

Table 1 Ten leading countries in the publications concerning microbiome-gut-brain axis
Fig. 3

Network visualization map for country collaboration. Of the 86 countries, 35 had at least ten publications; the largest set of connected countries consists of 34 countries. The size of frame represents the number of publications of the country and the thickness of lines signifies the size of collaboration between the countries, while 6 different colors seen in this figure represent the collaboration cluster of the countries

Co-authorship in the field of MGBA is shown in Fig. 4, with 5 clusters identified; the size of frame represents the number of publications by an author, and the thickness of lines signifies the extent of collaboration between authors. Of the 6054 authors, 25 had at least ten publications including the most active author Cryan, J.F. with 120 (7.0%) publications.

Fig. 4

Network visualization map for author collaboration. Of the 6054 authors, 25 had at least ten publications; the largest set of connected authors consists of 20 authors. The size of frame represents the number of publications of the author and the thickness of lines signifies the size of collaboration between the authors, while 5 different colors seen in this figure represent the collaboration cluster of the authors

The 10 most influential journals covering the MGBA research with their IFs are shown in Table 2. The three most influential journals from the top 10 influential journals are Brain Behavior and Immunity (49 articles), Plos One (34 articles), and Scientific Reports (33 articles). Table 3 shows the list of top 20 most-cited articles [56,57,58,59,60,61,62,63,64,65,66,67,68,69,70,71,72,73,74,75] on MGBA. The most prolific institutions were University College Cork (152 articles), McMaster University (67 articles), and INSERM (Institut National de la Santé et de la Recherche Médicale, French National Institute of Health and Medical Research, 43 articles) (Table 4).

Table 2 The most productive journals in the microbiome-gut-brain axis research
Table 3 The 20 most influential articles in the microbiome-gut-brain axis research
Table 4 The top ten most productive institutes


This is the first application of bibliometric quantitatively and qualitatively methods regarding the MGBA involving 1713 papers retrieved from Scopus. The results of this bibliometric analysis present a comprehensive overview of the development of the scientific literature in the MGBA field over the past 10 years.

The number of articles concerning MGBA research increased rapidly between 2009 and 2018. This increase is likely related to the many experts in psychiatry, neurology and gastroenterology fields (e.g. Cryan J.F., Dinan T.G., Clarke G., Bienenstock J., Forsythe P., Stanton C., Quigley E.M.M., Bercik P., O’Mahony S.M., Shanahan F., Foster J.A., Moloney R.D., and others) developing their interest in the physiological role of the guts’ microbiota on brain and behavior as an emerging platform for therapeutic intervention of many diseases. Furthermore, the increased number of publications may relate to several hot topics [56,57,58,59,60,61,62,63,64,65,66,67,68, 70,71,72, 74,75,76,77] which were published during this period, revealing novel findings that open the door for new areas of investigation. These studies propose novel concepts for treating several conditions such as IBS, autism, depression, multiple sclerosis, auto-immune disease, Parkinson’s disease, and obesity [78,79,80,81,82,83,84,85].

Since 2012, there has been growing research output in the field of MGBA, which is consistent with increasing research activity related to the microbiome in general. Similar findings have been reported in other bibliometric studies [43, 44, 86,87,88,89]. A possible underlying explanation for the rising publication numbers is that in 2013 the National Institutes of Health (NIH) launched the second phase of Integrative Human Microbiome Project (iHMP) [90].

Research output related to MGBA most often originated from the United States, as reported in other bibliometric studies regarding microbiome research [43, 44, 86,87,88,89]. Our study clearly reveals that the United States is at the forefront of studies on MGBA. The research output from the USA may be associated with the wide range of researchers with an interest within this field and a substantial amount of financial support to researchers. In 2013 the USA launched a special research project on gut microbiota-brain axis [91]. Since then, there has been increasing neuroscience interest in the role of gut microbiota on animal and human brain behavior and cognitive development [92, 93]. Ireland featured as the second most prolific nation and this might be related to Professor John F Cryan and Professor Ted Dinan, with their team who are the most active authors in this field, and principal investigators at the Alimentary Pharmabiotic Centre (APC) in University College Cork. [94] The APC is funded by Science Foundation Ireland (SFI) [75], and has conducted studies in collaboration with several companies including GlaxoSmithKline, Cremo, Suntory, Pfizer, Wyeth and Mead Johnson which consequently provided more funding for conducting research in the field of psychobiotics [75], thus may contribute to increasing number of publications regarding gut microbiota-brain axis.

The number of citations for the top 20 articles in the current study varied from 1490 to 347, which is higher range of citations than in other medical fields such as mobile-health [95], toxicology [28], social media in psychology [96], parasitic diseases [51, 97], and viral diseases [98,99,100]. Additionally, it also reveals that researchers paid great attention on the MGBA mostly in recent years, and published several outstanding articles on top-ranking journals in the medical field such as Science [56] and Nature [64]. The most cited article is “Host-gut microbiota metabolic interactions” a review by Nicholson et al., 2012 [56], published in Science, where the authors suggest that the manipulation of the gut microbiota to optimize new therapeutic strategies could control many diseases and improve health. The second most cited article “Mind-altering microorganisms: The impact of the gut microbiota on brain and behavior” was published in the Nature Reviews Neuroscience in 2012 by Cryan and Dinan [57], where the authors suggest that the concept of a microbiota-gut-brain axis may lead to the development of novel therapeutics for management of several neurological and psychiatric disorders.

Finally, there are some limitations for our study findings. First, the search was limited to publications listed in Scopus, which is the largest biomedical database and the most frequently used database for bibliometric analyses, although it might not contain all publications relevant to MGBA research. MGBA publications that do not include this term or its synonyms in the title, abstract or key words might not be taken into account for our analysis. Secondly, a general limitation of the bibliometric approach is that there is no weighting to take account of the quality or scientific rigor of any individual publication. Despite these limitations, we still consider that the findings offer a valid representation of MGBA research output at a global level.


The characteristics of the MGBA related publications from 2009 to 2018 are investigated through the bibliometrics analysis based on the Scopus database. This study demonstrates that the research on the MGBA has been becoming progressively more extensive at global level over the past 10 years. Overall, our study found a large amount of work on MGBA, focused on immunomodulation, irritable bowel syndrome, and neurodevelopmental disorders. Despite considerable progress illustrating the communication between the gut microbiome and the brain over the past 10 years, many issues remain to fully realize their relevance for therapeutic intervention of many diseases.

Availability of data and materials

Not applicable.



Irritable bowel syndrome


Impact factors


Journal citation reports


Standard competition ranking


Statistical package for social sciences


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The authors would like to thank An-Najah National University for all administrative support throughout the implementation of this project.


No funding was received for writing this study.

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SHZ designed the study, collected the data, analysed the data, and drafting the manuscript, SWA, WMS participated in the study design, involved in interpretation of the data, and made revisions to the initial draft, and SS and WSW contributed towards the conception, wrote part of the article, involved in interpretation of the data, and made revisions to the initial draft. All authors approved this final manuscript and also presented critical review before the final submission.

Correspondence to Sa’ed H. Zyoud.

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  • Gut microbiota
  • Gut microbiome-brain axis
  • Microbiome
  • Bibliometric
  • Scopus