Abstract
Molecular markers are largely used to assist in crop improvement with the aim to achieve more favorable results in reduced time. In this study, we applied scientometric approaches to investigate and describe the application of molecular markers in genetic studies of common bean (Phaseolus vulgaris L.). A total of 671 articles, available on Thomson Reuters Web of Science database, published between 1991 and 2020, were analyzed, and it was determined that the USA and Brazil have the highest number of publications related to this subject. The main topics where molecular markers were used in common beans were fingerprinting, genetic diversity assessment, mapping, molecular marker development, marker-assisted selection, comparative genomics or evolution, and marker-trait association. They were also used to solve problems related to anthracnose (Colletotrichum lindemuthianum) and agronomic traits. As the genome sequence of common bean has been publicly available since 2014, SNP markers are frequently employed and their use is increasing, whereas other molecular markers are being bypassed.
Similar content being viewed by others
References
Aragão FJ, Nogueira EO, Tinoco MLP, Faria JC (2013) Molecular characterization of the first commercial transgenic common bean immune to the Bean golden mosaic virus. J Biotechnol 166(1–2):42–50. https://doi.org/10.1016/j.jbiotec.2013.04.009
Aria M, Cuccurullo C (2017) bibliometrix: an R-tool for comprehensive science mapping analysis. J Informet 11(4):959–975. https://doi.org/10.1016/j.joi.2017.08.007
Assefa T, Mahama AA, Brown AV, Cannon EK, Rubyogo JC, Rao IM, Cannon SB (2019) A review of breeding objectives, genomic resources, and marker-assisted methods in common bean (Phaseolus vulgaris L.). Mole Breed 39(2):20. https://doi.org/10.1007/s11032-018-0920-0
Benson DA, Cavanaugh M, Clark K, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW (2013) GenBank. Nucleic Acids Res 41:D36-42. https://doi.org/10.1093/nar/gks1195
Botstein D, White RL, Skolnick M, Davis RW (1980) Construction of a genetic linkage map in man using restriction fragment length polymorphisms. Am J Hum Genet 32(3):314
Bitocchi E, Rau D, Bellucci E, Rodriguez M, Murgia ML, Gioia T, Papa R (2017) Beans (Phaseolus ssp.) as a model for understanding crop evolution. Front Plant Sci 8:722. https://doi.org/10.3389/fpls.2017.00722
Bitocchi E, Nanni L, Bellucci E, Rossi M, Giardini A, Zeuli PS, Logozzo G, Stougaard J, McClean P, Attene G, Papa R (2012) Mesoamerican origin of the common bean (Phaseolus vulgaris L.) is revealed by sequence data. Proc Nat Acad Sci 109(14):E788–E796. https://doi.org/10.1073/pnas.1108973109
Broughton WJ, Hernandez G, Blair M, Beebe S, Gepts P, Vanderleyden J (2003) Beans (Phaseolus spp.)–model food legumes. Plant Soil 252(1):55–128. https://doi.org/10.1023/A:1024146710611
Collard BCY, Jahufer MZZ, Brouwer JB, Pang ECK (2005) An introduction to markers, quantitative trait loci (QTL) mapping and marker-assisted selection for crop improvement: the basic concepts. Euphytica 142(1):169–196. https://doi.org/10.1007/s10681-005-1681-5
CIAT-CGIAR (2019) Bean diversity. Available at: https://ciat.cgiar.org/what-we-do/crop-conservation-anduse/bean-diversity/
de Bem Oliveira I, Nunes R, Mattiello L, Barros-Ribeiro S, de Souza IP, Coelho ASG, Collevatti RG (2019) Research and partnership in studies of sugarcane using molecular markers: a scientometric approach. Scientometrics 119(1):335–355. https://doi.org/10.1007/s11192-019-03047-6
Faria JC, Valdisser PA, Nogueira EO, Aragão FJ (2014) RNAi-based Bean golden mosaic virus-resistant common bean (Embrapa 5.1) shows simple inheritance for both transgene and disease resistance. Plant Breed 133(5):649–653. https://doi.org/10.1111/pbr.12189
FAO, 2018. FAOSTAT. Food and Agriculture Organization of the United Nations, Rome, Italy
Freyre R, Skroch PW, Geffroy V, Adam-Blondon A-F, Shirmohamadali A, Johnson WC, Llaca V, Nodari RO, Pereira PA, Tsai S-M, Tohme J, Dron M, Nienhuis J, Vallejos CE, Gepts P (1998) Towards an integrated linkage map of common bean. 4. Development of a core linkage map and alignment of RFLP maps. Theor Appl Genet 97(5–6):847–856. https://doi.org/10.1007/s001220050964
Garrido-Cardenas JA, Mesa-Valle C, Manzano-Agugliaro F (2018) Trends in plant research using molecular markers. Planta 247(3):543–557. https://doi.org/10.1007/s00425-017-2829-y
Goodstein DM, Shu S, Howson R, Neupane R, Hayes RD, Fazo J, Rokhsar DS (2012) Phytozome: a comparative platform for green plant genomics. Nucleic Acids Res 40(D1):D1178–D1186. https://doi.org/10.1093/nar/gkr944
Litt M, Luty JA (1989) A hypervariable microsatellite revealed by in vitro amplification of a dinucleotide repeat within the cardiac muscle actin gene. Am J Hum Genet 44(3):397
Martins SJ, Faria AF, Pedroso MP, Cunha MG, Rocha MR, Medeiros FHV (2019) Microbial volatiles organic compounds control anthracnose (Colletotrichum lindemuthianum) in common bean (Phaseolus vulgaris L.). Biol Control 131:36–42. https://doi.org/10.1016/j.biocontrol.2019.01.003
Meira D, Woyann LG, Bozi AH et al (2020) Asian soybean rust: a scientometric approach of Phakopsora pachyrhizi studies. Euphytica 216:133. https://doi.org/10.1007/s10681-020-02667-x
R Development Core Team. (2020). R: a language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. http://www.r-project.org/
Rafalski A (2002) Applications of single nucleotide polymorphisms in crop genetics. Curr Opin Plant Biol 5(2):94–100. https://doi.org/10.1016/s1369-5266(02)00240-6
Riaño-Pachón DM, Mattiello L (2017) Draft genome sequencing of the sugarcane hybrid SP80–3280. F1000Research 6:861. https://doi.org/10.12688/f1000research.11859.1
Sangiogo M, Rodriguez DP, Moccellin R, Bermudez JMM, Corrêa BO, Moura AB (2018) Foliar spraying with bacterial biocontrol agents for the control of common bacterial blight of bean. Pesq Agrop Brasileira 53(10):1101–1108. https://doi.org/10.1590/s0100-204x2018001000003
Schmutz J, McClean PE, Mamidi S, Wu GA, Cannon SB, Grimwood J, Torres-Torres M (2014) A reference genome for common bean and genome-wide analysis of dual domestications. Nat Genet 46(7):707. https://doi.org/10.1038/ng.3008
Singh BD, Singh AK (2015) Marker-assisted plant breeding: principles and practices. Springer, New Delhi, pp 77–122
Souza TLP, Faria JC, Aragão FJ, Del Peloso MJ, Faria LC, Wendland A, Melo LC (2018) Agronomic performance and yield stability of the RNA Interference-based Bean golden mosaic virus-resistant common bean. Crop Sci 58(2):579–591. https://doi.org/10.2135/cropsci2017.06.0355
van Eck NJ, Waltman L (2010) Software survey: VOSviewer, a computer program for bibliometric mapping. Scientometrics 84(2):523–538. https://doi.org/10.1007/s11192-009-0146-3
Vieira MLC, Santini L, Diniz AL, Munhoz CDF (2016) Microsatellite markers: what they mean and why they are so useful. Genet Mol Biol 39(3):312–328. https://doi.org/10.1590/1678-4685-GMB-2016-0027
Vlasova A, Capella-Gutiérrez S, Rendón-Anaya M, Hernández-Oñate M, Minoche AE, Erb I, Westergaard G (2016) Genome and transcriptome analysis of the Mesoamerican common bean and the role of gene duplications in establishing tissue and temporal specialization of genes. Genome Biol 17(1):32. https://doi.org/10.1186/s13059-016-0883-6
Wang X, Liu D, Ding K, Wang X (2012) Science funding and research output: a study on 10 countries. Scientometrics 91(2):591–599. https://doi.org/10.1007/s11192-011-0576-6
Williams JG, Kubelik AR, Livak KJ, Rafalski JA, Tingey SV (1990) DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucleic Acids Res 18(22):6531–6535. https://doi.org/10.1093/nar/18.22.6531
Yang H, Li C, Lam HM, Clements J, Yan G, Zhao S (2015) Sequencing consolidates molecular markers with plant breeding practice. Theor Appl Genet 128(5):779–795. https://doi.org/10.1007/s00122-015-2499-8
Zabeau, M., Vos, P. (1993). European patent application. Publication no: EP0534858
Acknowledgements
The authors are grateful to Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES) and Universidade Tecnológica Federal do Paraná for financial support.
Author information
Authors and Affiliations
Corresponding author
Additional information
Publisher's Note
Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
Supplementary information
Below is the link to the electronic supplementary material.
Rights and permissions
About this article
Cite this article
Kafer, J.M., Gobatto, D.R., Woyann, L.G. et al. The impact of molecular markers in common bean through a scientometric approach. Euphytica 217, 147 (2021). https://doi.org/10.1007/s10681-021-02879-9
Received:
Accepted:
Published:
DOI: https://doi.org/10.1007/s10681-021-02879-9