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Ancient DNA in Lycoptera Fossils: Key Discoveries for Evolution and Methodological Reassessment

https://doi.org/10.1101/2023.06.18.545504
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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Applications of environmental DNA (eDNA) in ecology and conservation: opportunities, challenges and prospects
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Evolutionary impact of transposable elements on genomic diversity and lineage-specific innovation in vertebrates
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Phylogenetic relationships of Cypriniformes and plasticity of pharyngeal teeth in the adaptive radiation of cyprinids
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Tracing the genetic footprints of vertebrate landing in non-teleost ray-finned fishes
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The deep population history of northern East Asia from the Late Pleistocene to the Holocene
inferredcites →https://doi.org/10.1016/j.cub.2015.04.007openalex-snapshot
Complete Genomes Reveal Signatures of Demographic and Genetic Declines in the Woolly Mammoth
inferredcites →https://doi.org/10.1016/j.cub.2024.04.068openalex-snapshot
Ancient genomes revealed the complex human interactions of the ancient western Tibetans
inferredcites →https://doi.org/10.1016/j.earscirev.2021.103600openalex-snapshot
DNA staining in fossil cells beyond the Quaternary: Reassessment of the evidence and prospects for an improved understanding of DNA preservation in deep time
inferredcites →https://doi.org/10.1016/j.epsl.2008.03.026openalex-snapshot
Extraterrestrial nucleobases in the Murchison meteorite
inferredcites →https://doi.org/10.1016/j.foodchem.2019.125205openalex-snapshot
Development of nucleic acid isolation by non-silica-based nanoparticles and real-time PCR kit for edible vegetable oil traceability
inferredcites →https://doi.org/10.1016/j.gde.2018.02.007openalex-snapshot
Horizontal acquisition of transposable elements and viral sequences: patterns and consequences
inferredcites →https://doi.org/10.1016/j.jbiotec.2005.12.019openalex-snapshot
Fish transposons and their potential use in aquaculture
inferredcites →https://doi.org/10.1016/j.precamres.2017.08.009openalex-snapshot
Nuclei and nucleoli in embryo-like fossils from the Ediacaran Weng’an Biota
inferredcites →https://doi.org/10.1016/j.scib.2022.12.027openalex-snapshot
Assessment of contaminants associated with gold-standard ancient DNA protocols
inferredcites →https://doi.org/10.1016/j.tree.2005.07.005openalex-snapshot
Assessing ancient DNA studies
inferredcites →https://doi.org/10.1038/264034a0openalex-snapshot
Overlapping genes in bacteriophage φX174
inferredcites →https://doi.org/10.1038/312282a0openalex-snapshot
DNA sequences from the quagga, an extinct member of the horse family
inferredcites →https://doi.org/10.1038/362709a0openalex-snapshot
Instability and decay of the primary structure of DNA
inferredcites →https://doi.org/10.1038/nature12323openalex-snapshot
Recalibrating Equus evolution using the genome sequence of an early Middle Pleistocene horse
inferredcites →https://doi.org/10.1038/nature12886openalex-snapshot
The complete genome sequence of a Neanderthal from the Altai Mountains
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Partial genomic survival of cave bears in living brown bears
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The sterlet sturgeon genome sequence and the mechanisms of segmental rediploidization
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Million-year-old DNA sheds light on the genomic history of mammoths
inferredcites →https://doi.org/10.1038/s41586-022-05453-yopenalex-snapshot
A 2-million-year-old ecosystem in Greenland uncovered by environmental DNA
inferredcites →https://doi.org/10.1038/s41598-020-67452-1openalex-snapshot
Persistence of environmental DNA in cultivated soils: implication of this memory effect for reconstructing the dynamics of land use and cover changes
inferredcites →https://doi.org/10.1038/s42003-021-02627-8openalex-snapshot
Nuclear preservation in the cartilage of the Jehol dinosaur Caudipteryx
inferredcites →https://doi.org/10.1038/s43586-020-00011-0openalex-snapshot
Ancient DNA analysis
inferredcites →https://doi.org/10.1073/pnas.0500398102openalex-snapshot
Epigenetic differences arise during the lifetime of monozygotic twins
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The catalytic domain of all eukaryotic cut-and-paste transposase superfamilies
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DNA analysis of an early modern human from Tianyuan Cave, China
inferredcites →https://doi.org/10.1073/pnas.1314445110openalex-snapshot
Complete mitochondrial genome sequence of a Middle Pleistocene cave bear reconstructed from ultrashort DNA fragments
inferredcites →https://doi.org/10.1073/pnas.1719358115openalex-snapshot
Comprehensive phylogeny of ray-finned fishes (Actinopterygii) based on transcriptomic and genomic data
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Alu -mediated inactivation of the human CMP- N -acetylneuraminic acid hydroxylase gene
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A high-coverage Neandertal genome from Chagyrskaya Cave
inferredcites →https://doi.org/10.1093/molbev/msac068openalex-snapshot
Paleozoic Protein Fossils Illuminate the Evolution of Vertebrate Genomes and Transposable Elements
inferredcites →https://doi.org/10.1093/molbev/msw130openalex-snapshot
High Similarity between Distantly Related Species of a Plant SINE Family Is Consistent with a Scenario of Vertical Transmission without Horizontal Transfers
inferredcites →https://doi.org/10.1093/nar/gkp1163openalex-snapshot
Removal of deaminated cytosines and detection of in vivo methylation in ancient DNA
inferredcites →https://doi.org/10.1093/nsr/nwu055openalex-snapshot
The Jehol Biota, an Early Cretaceous terrestrial Lagerstätte: new discoveries and implications
inferredcites →https://doi.org/10.1093/sysbio/sys029openalex-snapshot
MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space
inferredcites →https://doi.org/10.1098/rspb.2012.1745openalex-snapshot
The half-life of DNA in bone: measuring decay kinetics in 158 dated fossils
inferredcites →https://doi.org/10.1098/rstb.2013.0383openalex-snapshot
Ancient and modern environmental DNA
inferredcites →https://doi.org/10.1101/cshperspect.a012567openalex-snapshot
Ancient DNA Damage
inferredcites →https://doi.org/10.1101/gad.6.8.1457openalex-snapshot
Endogenous retroviral sequences are required for tissue-specific expression of a human salivary amylase gene.
inferredcites →https://doi.org/10.1111/gbi.12053openalex-snapshot
The nature and origin of nucleus‐like intracellular inclusions in P aleoproterozoic eukaryote microfossils
inferredcites →https://doi.org/10.1111/j.1365-2958.1993.tb01140.xopenalex-snapshot
Translational frameshifting in the control of transposition in bacteria
inferredcites →https://doi.org/10.1126/sciadv.add5582openalex-snapshot
Human genetic history on the Tibetan Plateau in the past 5100 years
inferredcites →https://doi.org/10.1126/science.1188021openalex-snapshot
A Draft Sequence of the Neandertal Genome
inferredcites →https://doi.org/10.1126/science.1249884openalex-snapshot
Fossilized Nuclei and Chromosomes Reveal 180 Million Years of Genomic Stasis in Royal Ferns
inferredcites →https://doi.org/10.1126/science.161.3841.529openalex-snapshot
Repeated Sequences in DNA
inferredcites →https://doi.org/10.1126/science.aao1887openalex-snapshot
A high-coverage Neandertal genome from Vindija Cave in Croatia
inferredcites →https://doi.org/10.1126/science.abb6320openalex-snapshot
Denisovan DNA in Late Pleistocene sediments from Baishiya Karst Cave on the Tibetan Plateau
inferredcites →https://doi.org/10.1146/annurev.micro.56.012302.160950openalex-snapshot
The Class Mesomycetozoea: A Heterogeneous Group of Microorganisms at the Animal-Fungal Boundary
inferredcites →https://doi.org/10.1186/s13100-020-00229-5openalex-snapshot
Transposable element-derived sequences in vertebrate development
inferredcites →https://doi.org/10.1186/s40793-020-00355-wopenalex-snapshot
Genome-centric resolution of novel microbial lineages in an excavated Centrosaurus dinosaur fossil bone from the Late Cretaceous of North America
inferredcites →https://doi.org/10.2307/1437499openalex-snapshot
Classification of Fishes, Both Recent and Fossil
inferredcites →https://doi.org/10.5962/p.314188openalex-snapshot
On the genus Lycoptera and its relationship with the family Hiodontidae (Pisces, Osteoglossomorpha)

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1101/2025.04.27.650833openalex-snapshot
Ancient DNA Reveals Hominoid Evolution: Intermediate DNA Sequences and Advances in Molecular Paleontology
inferred← citeshttps://doi.org/10.3986/alternator.2023.30openalex-snapshot
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