Metabolic activity and community structure of prokaryotes associated with particles in the twilight zone of the South China Sea [PDF]
Frontiers in Microbiology, 2022 The twilight zone is an important depth of the ocean where particulate organic matter (POM) remineralization takes place, and prokaryotes contribute to more than 70% of the estimated remineralization.
Hao Liu +8 more
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What the geological past can tell us about the future of the ocean’s twilight zone [PDF]
Nature Communications, 2023 Paleontological reconstructions of plankton community structure during warm periods of the Cenozoic (last 66 million years) reveal that deep-dwelling ‘twilight zone’ (200–1000 m) plankton were less abundant and diverse, and lived much closer to the ...
Katherine A. Crichton +6 more
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EnsembleFam: towards more accurate protein family prediction in the twilight zone [PDF]
BMC Bioinformatics, 2022 Background Current protein family modeling methods like profile Hidden Markov Model (pHMM), k-mer based methods, and deep learning-based methods do not provide very accurate protein function prediction for proteins in the twilight zone, due to low ...
Mohammad Neamul Kabir, Limsoon Wong
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Bacterial distribution in Twilight zone of the Indian sector of Southern Ocean: V3- V4 rDNA hypervariable region data [PDF]
Data in Brief, 2023 Twilight zones in oceans represent the oceanic waters between 200 m to 1000 m in depth, wherein sunlight is diffused and intensity is
Alok K. Sinha +2 more
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Biological function in the twilight zone of sequence conservation [PDF]
BMC Biology, 2017 Strong DNA conservation among divergent species is an indicator of enduring functionality. With weaker sequence conservation we enter a vast ‘twilight zone’ in which sequence subject to transient or lower constraint cannot be distinguished easily from ...
Chris P. Ponting
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Community differences and potential function along the particle size spectrum of microbes in the twilight zone [PDF]
MicrobiomeBackground The twilight zone, which extends from the base of the euphotic zone to a depth of 1000 m, is the major area of particulate organic carbon (POC) remineralization in the ocean. However, little is known about the microbial community and metabolic
Yue Zhang, Hongbin Liu, Hongmei Jing
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Modular prediction of protein structural classes from sequences of twilight-zone identity with predicting sequences [PDF]
BMC Bioinformatics, 2009 Background Knowledge of structural class is used by numerous methods for identification of structural/functional characteristics of proteins and could be used for the detection of remote homologues, particularly for chains that share twilight-zone ...
Kurgan Lukasz, Mizianty Marcin J
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Fine-tuning structural RNA alignments in the twilight zone [PDF]
BMC Bioinformatics, 2010 Background A widely used method to find conserved secondary structure in RNA is to first construct a multiple sequence alignment, and then fold the alignment, optimizing a score based on thermodynamics and covariance.
Schirmer Stefanie +2 more
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Evolutionary distances in the twilight zone--a rational kernel approach. [PDF]
PLoS ONE, 2010 Phylogenetic tree reconstruction is traditionally based on multiple sequence alignments (MSAs) and heavily depends on the validity of this information bottleneck. With increasing sequence divergence, the quality of MSAs decays quickly.
Roland F Schwarz +6 more
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Geochemistry, Geophysics, Geosystems, 2023 We utilized the 228Th/228Ra and 234Th/238U disequilibrium methods to estimate the export of particulate organic carbon (POC) from the upper twilight zone in the northern South China Sea during four cruises from August 2009 to May 2011, covering an entire
Fangfang Deng, Feng Lin
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