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Antimicrobial Resistance: Genes, Genomes and Emerging Technologies

Guest Editors:
Abd El-Latif Hesham: Beni-Suef University, Egypt
Youxiong Que: Fujian Agriculture and Forestry University, China 
Divakar Sharma: Lady Hardinge Medical College, India


BMC Genomics and BMC Microbiology were calling for submissions to our Collection on Antimicrobial Resistance: Genes, Genomes and Emerging Technologies. Antimicrobial resistance (AMR) has developed into a silent pandemic ever expanding in the background, disrupting lives and responsible for multiple deaths across the globe. As more of the research community joins in the fight against antimicrobial resistance to combat this ever-present threat to society, it has become clear that combining forces across disciplines is the way forward. A large part of the effort in combating AMR still comes from studying its genes and genomes, gathering surveillance and understanding cellular mechanisms to target. In recognition of this important, and growing area of research BMC Microbiology together with BMC Genomics welcomed submissions to this cross-journal collection on antimicrobial Resistance: Genes, Genomes, and Emerging Technologies.

Meet the Guest Editors

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Abd El-Latif Hesham: Beni-Suef University, Egypt

Abd El-Latif Hesham is a full Professor of Microbial Genetics and Environmental Meta-Genome Biotechnology, and presently working as Head of Genetics Department at the Faculty of Agriculture, Beni-Suef University (BSU), Egypt. He is one of the leading experts in the area of microbial genetics,  environmental meta-genome biotechnology, anti-microbial activates, and multi-drug resistant bacteria. Prof. Hesham has been elected as member of the Egyptian National Biotechnology Network of Expertise (NBNE); Member of the National Committee for Genetic Sciences and has been appointed as the Country Representative for Egypt and the Arab Counties by International Biodeterioration & Biodegradation Society (IBBS) UK, which belongs to the Federation of European Microbiological Societies. Prof. Hesham serves as an editorial board member for BMC Microbiology.

Youxiong Que: Fujian Agriculture and Forestry University, China 

Youxiong Que is a full Professor in the College of Agriculture at the Fujian Agriculture and Forestry University (FAFU). He was employed as an assistant professor in 2008, promoted to be an associate professor in 2010 and a professor in 2015. He has been a visiting scientist at USDA-ARS during 2010-2011. He is now the director of Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture and Rural Affairs / FAFU, China. His research interests are in the fields of crop genetics and biotechnology especially sugarcane biotechnology, including but not limited to the following three aspects, molecular interaction between crop and pathogen, gene mining and function identification, and molecular breeding. 

Divakar Sharma: Lady Hardinge Medical College, India

Dr. Sharma has a PhD in Biotechnology from Jiwaji University, Gwalior and National JALMA Institute for Leprosy and Other Mycobacterial Diseases, Agra, India, with a special interest in drug resistant tuberculosis, antimicrobial resistance, bacterial infections, biofilms etc. After his PhD, he continued the post doctoral research work on the exploration of drug resistance in microbes by genomics, proteomic, and bioinformatics approaches in the National JALMA Institute for Leprosy and Other Mycobacterial Diseases and Aligarh Muslim University, India as an ICMR-PDF and SERB-N-PDF. After that Dr. Sharma served as a research scientist in IIT Delhi and Maulana Azad Medical College, Delhi, India. Currently he is working as a Scientist at Lady Hardinge Medical College, Delhi, India and exploring therenostics and alternative therapeutic drug target to combat antibiotic resistance.  


About the collection

BMC Genomics and BMC Microbiology called for submissions to our Collection on Antimicrobial Resistance: Genes, Genomes and Emerging Technologies. 

Antimicrobial resistance (AMR) has developed into a silent pandemic ever expanding in the background, disrupting lives and responsible for multiple deaths across the globe. As more of the research community joins in the fight against antimicrobial resistance to combat this ever-present threat to society, it has become clear that combining forces across disciplines is the way forward. A large part of the effort in combating AMR still comes from studying its genes and genomes, gathering surveillance and understanding cellular mechanisms to target. In recognition of this important, and growing area of research BMC Microbiology together with BMC Genomics published this cross-journal collection on antimicrobial Resistance – Genes, genomes, and emerging technologies.

The collection broadly covers the following areas of research:

  • Genomic surveillance
  • Antimicrobial discovery
  • Machine learning and GWAS approaches
  • Genetic basis of AMR and AMR diagnostics
  • Global trends in AMR
  • AMR and big data
  • Tackling AMR
  • Emerging approaches to combat AMR
  • New technologies and methods in AMR research
  • Bacterial sequencing in clinical practice
  • Biosensors and artificial intelligence to support antimicrobial optimization
  • AMR modelling research
  • Exploring the targets to be used as theranostics

 Image credit: © vrx123 / stock.adobe.com

  1. Antimicrobial resistance poses a huge risk to human health worldwide, while Bangladesh is confronting the most severe challenge between the food supply and the huge consumption of antibiotics annually. More im...

    Authors: Md Atiqul Haque, Huilong Hu, Jiaqi Liu, Md Aminul Islam, Foysal Hossen, Md Arifur Rahman, Firoz Ahmed and Cheng He
    Citation: BMC Microbiology 2024 24:61
  2. The most widely practiced strategy for constructing the deep learning (DL) prediction model for drug resistance of Mycobacterium tuberculosis (MTB) involves the adoption of ready-made and state-of-the-art archite...

    Authors: Yu Wang, Zhonghua Jiang, Pengkuan Liang, Zhuochong Liu, Haoyang Cai and Qun Sun
    Citation: BMC Genomics 2024 25:167
  3. Streptococcus iniae is an important fish pathogen that cause significant economic losses to the global aquaculture industry every year. Although there have some reports on the genotype of S.iniae and its relation...

    Authors: Xiangying Xiong, Ruifang Chen and Junxiang Lai
    Citation: BMC Genomics 2023 24:775
  4. The prevalence of Acinetobacter baumannii in nosocomial infections and its remarkable ability to develop antimicrobial resistance have been a critical issue in hospital settings. Here, we examined the genomic fea...

    Authors: Made Rai Dwitya Wiradiputra, Krit Thirapanmethee, Piyatip Khuntayaporn, Pagakrong Wanapaisan and Mullika Traidej Chomnawang
    Citation: BMC Genomics 2023 24:689
  5. Candida glabrata is an important cause of invasive candidiasis. Echinocandins are the first-line treatment of invasive candidiasis caused by C. glabrata. The epidemiological echinocandin sensitivity requires long...

    Authors: Yi Li, Xin Hou, Ruoyu Li, Kang Liao, Ling Ma, Xiaoming Wang, Ping Ji, Haishen Kong, Yun Xia, Hui Ding, Wei Kang, Ge Zhang, Jin Li, Meng Xiao, Yingxing Li and Yingchun Xu
    Citation: BMC Microbiology 2023 23:341

    The Correction to this article has been published in BMC Microbiology 2023 23:375

  6. With the promotion of “One Health,” the health of animals and their impact on the environment have become major concerns recently. Widely distributed in China, the whooper swans (Cygnus cygnus) and black swans (C...

    Authors: Yin Fu, Kaihui Zhang, Fa Shan, Junqiang Li, Yilin Wang, Xiaoying Li, Huiyan Xu, Ziyang Qin and Longxian Zhang
    Citation: BMC Genomics 2023 24:635
  7. The emergence and wide spread of carbapenemase-producing Enterobacteriaceae (CPE) poses a growing threat to global public health. However, clinically derived carbapenemase-producing Citrobacter causing multiple i...

    Authors: Jianzhong Ye, Lulu Jin, Yaling Li, Hao Xu, Yishuai Lin, Tieli Zhou, Beiwen Zheng, Maofeng Wang and Zhongyong Wang
    Citation: BMC Genomics 2023 24:506
  8. As substitutes for antibiotics, probiotic bacteria protect against digestive infections caused by pathogenic bacteria. Ligilactobacillus salivarius is a species of native lactobacillus found in both humans and an...

    Authors: Jiajun Yang, Peng Shang, Bo Zhang, Jing Wang, Zhenyu Du, Shanfeng Wang, Jun Xing and Hao Zhang
    Citation: BMC Microbiology 2023 23:242
  9. The Acinetobacter baumannii genomic resistance islands (AbGRIs), which were characterized in the genome of the global clone 2 (GC2) A. baumannii contain resistance genes. Here, we aimed to determine the occurrenc...

    Authors: Ghazal Naderi, Mahla Asadian, Pegah Afarinesh Khaki, Mohammadreza Salehi, Alireza Abdollahi and Masoumeh Douraghi
    Citation: BMC Microbiology 2023 23:234
  10. Whole genome sequencing (WGS) of bacterial isolates can be used to identify antimicrobial resistance (AMR) genes. Previous studies have shown that genotype-based AMR has variable accuracy for predicting carbap...

    Authors: Rebecca Rose, David J. Nolan, Deborah Ashcraft, Amy K. Feehan, Leonor Velez-Climent, Christopher Huston, Benjamin Lain, Simon Rosenthal, Lucio Miele, Gary B. Fogel, George Pankey, Julia Garcia-Diaz and Susanna L. Lamers
    Citation: BMC Microbiology 2023 23:225
  11. Antimicrobial resistance (AMR) is a major public health challenge, particularly in sub-Saharan Africa (SSA). This study aimed to investigate the evolution and predict the future outlook of AMR in SSA over a 12...

    Authors: Dickson Aruhomukama and Hellen Nakabuye
    Citation: BMC Microbiology 2023 23:214
  12. The interaction networks between coding and non-coding RNAs (ncRNAs) including long non-coding RNA (lncRNA), covalently closed circular RNA (circRNA) and miRNA are significant to elucidate molecular processes ...

    Authors: Zigang Shen, Qiong Yang, Lie Luo, Tangxin Li, Zhuojun Ke, Tian Li, Jie Chen, Xianzhi Meng, Heng Xiang, Chunfeng Li, Zeyang Zhou, Ping Chen and Guoqing Pan
    Citation: BMC Genomics 2023 24:420
  13. Preterm labor syndrome is associated with high perinatal morbidity and mortality, and intra-amniotic infection is a cause of preterm labor. The standard identification of causative microorganisms is based on t...

    Authors: Pisut Pongchaikul, Roberto Romero, Paninee Mongkolsuk, Pornpun Vivithanaporn, Thidathip Wongsurawat, Piroon Jenjaroenpun, Perapon Nitayanon, Iyarit Thaipisuttikul, Threebhorn Kamlungkuea, Arunee Singsaneh, Pitak Santanirand and Piya Chaemsaithong
    Citation: BMC Genomics 2023 24:405
  14. Non-typeable Haemophilus influenzae (NTHi) has become the major cause of invasive H. influenzae diseases in the post-H. influenzae type b vaccine era. The emergence of multidrug-resistant (MDR) NTHi is a growing ...

    Authors: Pei-Yi Su, Wei-Hung Cheng and Cheng-Hsun Ho
    Citation: BMC Microbiology 2023 23:178
  15. The emergence of different viral infections calls for the development of new, effective, and safe antiviral drugs. Glycyrrhiza glabra is a well-known herbal remedy possessing antiviral properties.

    Authors: Dalia Elebeedy, Aml Ghanem, Shaza H. Aly, Mohamed A. Ali, Ahmed H. I. Faraag, Mohamed K. El-Ashrey, Aya M. salem, Mahmoud A. El Hassab and Ahmed I. Abd El Maksoud
    Citation: BMC Microbiology 2023 23:173
  16. Identifying clarithromycin resistance is essential for eradicating Helicobacter pylori (HP). Therefore, we evaluated the performance of Allplex™ H.pylori & ClariR Assay (Allplex™) for diagnosing and detecting cla...

    Authors: Ilsoo Kim, Lee-So Maeng, Joon Sung Kim, Byung-Wook Kim, Dae Young Cheung, Jin Il Kim and Soo-heon Park
    Citation: BMC Microbiology 2023 23:155

    The Correction to this article has been published in BMC Microbiology 2023 23:188

  17. Antimicrobial resistant infections continue to be a leading global public health crisis. Mobile genetic elements, such as plasmids, have been shown to play a major role in the dissemination of antimicrobial re...

    Authors: Nikolina Walas, Samuel Slown, Heather K. Amato, Tyler Lloyd, Monica Bender, Vici Varghese, Mark Pandori and Jay P. Graham
    Citation: BMC Microbiology 2023 23:147
  18. Shiga toxin-producing Escherichia coli (STEC) is a zoonotic pathogen, that is transmitted from a variety of animals, especially cattle to humans via contaminated food, water, feaces or contact with infected envir...

    Authors: Hanady G. Nada, Amera Saeed El-Tahan, Gamal El-Didamony and Ahmed Askora
    Citation: BMC Microbiology 2023 23:127
  19. The emergence of carbapenem-resistant Klebsiella pneumoniae (CRKP) attracted extensive attention. Information on CRKP from hospital wastewater (HWW) is limited. The aims of this study were to investigate the geno...

    Authors: Zhiqiang Xie, Jiangqing Huang, Shengcen zhang, BinBin Xu, Qianwen Zhang and Bin Li
    Citation: BMC Microbiology 2023 23:115