Ancient DNA analysis

L Orlando, R Allaby, P Skoglund… - Nature reviews …, 2021 - nature.com
Although the first ancient DNA molecules were extracted more than three decades ago, the
first ancient nuclear genomes could only be characterized after high-throughput sequencing …

A practical guide to amplicon and metagenomic analysis of microbiome data

YX Liu, Y Qin, T Chen, M Lu, X Qian, X Guo… - Protein & cell, 2021 - academic.oup.com
Advances in high-throughput sequencing (HTS) have fostered rapid developments in the
field of microbiome research, and massive microbiome datasets are now being generated …

Host selection shapes crop microbiome assembly and network complexity

C Xiong, YG Zhu, JT Wang, B Singh, LL Han… - New …, 2021 - Wiley Online Library
Plant microbiomes are essential to host health and productivity but the ecological processes
that govern crop microbiome assembly are not fully known. Here we examined bacterial …

Microbiome analyses of blood and tissues suggest cancer diagnostic approach

GD Poore, E Kopylova, Q Zhu, C Carpenter… - Nature, 2020 - nature.com
Systematic characterization of the cancer microbiome provides the opportunity to develop
techniques that exploit non-human, microorganism-derived molecules in the diagnosis of a …

[HTML][HTML] Standardized multi-omics of Earth's microbiomes reveals microbial and metabolite diversity

JP Shaffer, LF Nothias, LR Thompson, JG Sanders… - Nature …, 2022 - nature.com
Despite advances in sequencing, lack of standardization makes comparisons across studies
challenging and hampers insights into the structure and function of microbial communities …

Machine learning in natural and engineered water systems

R Huang, C Ma, J Ma, X Huangfu, Q He - Water Research, 2021 - Elsevier
Water resources of desired quality and quantity are the foundation for human survival and
sustainable development. To better protect the water environment and conserve water …

[HTML][HTML] Plant developmental stage drives the differentiation in ecological role of the maize microbiome

C Xiong, BK Singh, JZ He, YL Han, PP Li, LH Wan… - Microbiome, 2021 - Springer
Background Plants live with diverse microbial communities which profoundly affect multiple
facets of host performance, but if and how host development impacts the assembly, functions …

[HTML][HTML] Translocation of viable gut microbiota to mesenteric adipose drives formation of creeping fat in humans

CWY Ha, A Martin, GD Sepich-Poore, B Shi, Y Wang… - Cell, 2020 - cell.com
A mysterious feature of Crohn's disease (CD) is the extra-intestinal manifestation of"
creeping fat"(CrF), defined as expansion of mesenteric adipose tissue around the inflamed …

[HTML][HTML] Reconstruction of ancient microbial genomes from the human gut

MC Wibowo, Z Yang, M Borry, A Hübner, KD Huang… - Nature, 2021 - nature.com
Loss of gut microbial diversity,,,,–in industrial populations is associated with chronic
diseases, underscoring the importance of studying our ancestral gut microbiome. However …

A systematic review of antibiotics and antibiotic resistance genes in estuarine and coastal environments

D Zheng, G Yin, M Liu, C Chen, Y Jiang, L Hou… - Science of the Total …, 2021 - Elsevier
Antibiotics and antibiotic resistance genes (ARGs) are prevalent in estuarine and coastal
environments due to substantial terrestrial input, aquaculture effluent, and sewage …