Despite the abundance of bacterial species in soil, more than 99% of these species cannot be cultured by traditional techniques. In addition, the less than 1% of bacteria that can be cultured are not representative of the total phylogenetic diversity. Hence, identifying novel species and their new functions is still an important task for all microbiologists. Cultivating techniques have played an important role in identifying new species but are still low-throughput processes. This review discusses the issues surrounding cultivation, including achievements, limitations, challenges, and future directions.
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http://dx.doi.org/10.1016/j.tibtech.2012.05.007 | DOI Listing |
Lab Chip
January 2025
State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China.
The human body harbors diverse microbial communities essential for maintaining health and influencing disease processes. Droplet microfluidics, a precise and high-throughput platform for manipulating microscale droplets, has become vital in advancing microbiome research. This review introduces the foundational principles of droplet microfluidics, its operational capabilities, and wide-ranging applications.
View Article and Find Full Text PDFMicroorganisms
November 2024
Université de Caen Normandie, CBSA UR 4312, UFR des Sciences, Campus 1, F-14000 Caen, France.
Uncultured microorganisms represent a promising and untapped source of antibacterial compounds, crucial in the fight against the significant threat of antimicrobial resistance (AMR). In this study, both traditional and isolation chip (iChip) cultivation techniques were employed to enhance the recovery of known and unknown microorganisms from soils located in Normandy, France. The isolates obtained were identified using 16S rDNA or ITS regions analysis and MALDI-TOF mass spectrometry and were screened for antibacterial activity.
View Article and Find Full Text PDFWater Res
December 2024
Department of Environmental Metagenomics, Research Center One Health Ruhr, University Alliance Ruhr, Faculty of Chemistry, University of Duisburg-Essen, Essen, Germany; Centre of Water and Environmental Research, University of Duisburg-Essen, Essen, Germany. Electronic address:
Aquatic ecosystems house a significant fraction of Earth's biosphere, yet most prokaryotes inhabiting these environments remain uncultivated. While recently developed genome-resolved metagenomics and single-cell genomics techniques have underscored the immense genetic breadth and metabolic potential residing in uncultivated Bacteria and Archaea, cultivation of these microorganisms is required to study their physiology via genetic systems, confirm predicted biochemical pathways, exploit biotechnological potential, and accurately appraise nutrient turnover. Over the past two decades, the limitations of culture-independent investigations highlighted the importance of cultivation in bridging this vast knowledge gap.
View Article and Find Full Text PDFMicroorganisms
November 2024
Institute of Bioengineering, Research Center of Biotechnology, Russian Academy of Sciences, Moscow 119071, Russia.
The phylum is one of the main groups of soil prokaryotes, which remains poorly represented by cultivated organisms. The major recognized role of in soils is the degradation of plant-derived organic matter. These bacteria are particularly abundant in peatlands, where xylan-type hemicelluloses represent one of the most actively decomposed peat constituents.
View Article and Find Full Text PDFAntonie Van Leeuwenhoek
November 2024
Temasek Life Sciences Laboratory, 1 Research Link, Singapore, 117604, Singapore.
Asian Seabass (Lates calcarifer) is widely farmed as a sustainable source of protein for countries in the tropical Indo-West Pacific region. However, microbial species of the gut microbiome of healthy Asian Seabass remain largely uncharacterized and uncultured. Here, we analysed the microbial composition along the gastrointestinal tract of a farmed healthy Asian Seabass.
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