Sequencing articles within Nature

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  • News & Views |

    Tiny holes have been drilled through individual layers of graphene — atomically thin sheets of carbon — using an electron beam. These nanopores might be useful for the ultrarapid sequencing of single DNA molecules.

    • Hagan Bayley

  • Feature |

    The publishing of the first Trypanosoma cruzi genome sequence was hailed as “a huge intellectual triumph”, but what has it delivered?

    • Julie Clayton

  • News Feature |

    The completion of the draft human genome sequence was announced ten years ago. Nature's survey of life scientists reveals that biology will never be the same again. Declan Butler reports.

    • Declan Butler

  • News |

    Body-louse genome offers a glimpse into the genetic legacy of life as a permanent parasite.

    • Heidi Ledford

  • Careers and Recruitment |

    Rapid technological developments have spurred big changes in the requisite genome-sequencing jobs. Kelly Rae Chi assesses the sequencing assembly line.

    • Kelly Rae Chi

  • News |

    A technology that simultaneously reads a DNA sequence and its crucial modifications makes its debut.

    • Alla Katsnelson

  • News |

    Worldwide census ups diversity estimates for marine microbes one-hundred-fold.

    • Jane Qiu

  • News Feature |

    The more biologists look, the more complexity there seems to be. Erika Check Hayden asks if there's a way to make life simpler.

    • Erika Check Hayden

  • News & Views |

    The sequencing of ancient DNA is generating dramatic results. The sequence from a bone fragment has revealed the existence of an unknown type of extinct human ancestor that lived in Asia 40,000 years ago.

    • Terence A. Brown

  • Letter |

    There is much interest in understanding the genetic mechanisms that underlie individual variations in gene expression. Here, RNA sequencing has been used to study gene expression in lymphoblastoid cell lines derived from Nigerian individuals for whom extensive genotype information is known. Numerous genetic determinants of variation in gene expression were identified, including variation in transcription, splicing and allele-specific expression.

    • Joseph K. Pickrell
    • , John C. Marioni
    •  & Jonathan K. Pritchard

  • Letter
    | Open Access

    Here, the genomes of birds representing eight populations of domestic chickens are compared with the genome of their wild ancestor, the red jungle fowl. The results reveal selective sweeps of favourable alleles and mutations that may have contributed to domestication. One selective sweep, for instance, occurred at the locus encoding the thyroid stimulating hormone receptor, which is important in metabolism and in the timing of vertebrate reproduction.

    • Carl-Johan Rubin
    • , Michael C. Zody
    •  & Leif Andersson

  • Letter |

    Here, sequencing has been used to characterize the mRNA fraction of the transcriptome in Caucasian individuals, to provide a fine-scale view of transcriptomes and to identify genetic variants that affect alternative splicing. Measuring allele-specific expression identified rare expression quantitative trait loci (eQTLs) and allelic differences in transcript structure, revealing new properties of genetic effects on the transcriptome.

    • Stephen B. Montgomery
    • , Micha Sammeth
    •  & Emmanouil T. Dermitzakis

  • Article
    | Open Access

    Deep metagenomic sequencing and characterization of the human gut microbiome from healthy and obese individuals, as well as those suffering from inflammatory bowel disease, provide the first insights into this gene set and how much of it is shared among individuals. The minimal gut metagenome as well as the minimal gut bacterial genome is also described.

    • Junjie Qin
    • , Ruiqiang Li
    •  & Jun Wang

  • Article |

    The transcriptome of Helicobacter pylori, an important human pathogen involved in gastric ulcers and cancer, is presented. The approach establishes a model for mapping and annotating the primary transcriptomes of many living species.

    • Cynthia M. Sharma
    • , Steve Hoffmann
    •  & Jörg Vogel

  • Article
    | Open Access

    The first genome sequence of an ancient human is reported. It comes from an approximately 4,000-year-old permafrost-preserved hair from a male from the first known culture to settle in Greenland. Functional single-nucleotide polymorphism (SNP) assessment is used to assign possible phenotypic characteristics and high-confidence SNPs are compared to those of contemporary populations to find those most closely related to the individual.

    • Morten Rasmussen
    • , Yingrui Li
    •  & Eske Willerslev

  • Article |

    The genome of the wild grass Brachypodium distachyon (Brachypodium), a member of the Pooideae subfamily, is sequenced. The Pooideae are one of three subfamilies of grasses that provide the bulk of human nutrition and may become major sources of renewable energy. Availability of the genome sequence should help establish Brachypodium as a model for developing new energy and food crops.

    • John P. Vogel
    • , David F. Garvin
    •  & Ivan Baxter

  • News & Views |

    The giant-panda genome is the first reported de novo assembly of a large mammalian genome achieved using next-generation sequencing methods. The feat reflects a trend towards ever-decreasing genome-sequencing costs.

    • Kim C. Worley
    •  & Richard A. Gibbs

  • Article
    | Open Access

    Soybean is an important crop plant, providing seed protein and oil and fixing atmospheric nitrogen through symbioses with soil-borne microorganisms. Using a whole-genome shotgun approach, its 1.1-gigabase genome is now sequenced and integrated with physical and high-density genetic maps to create a chromosome-scale draft sequence assembly.

    • Jeremy Schmutz
    • , Steven B. Cannon
    •  & Scott A. Jackson

  • Letter |

    Clear cell renal carcinoma, the most common form of adult kidney cancer, is often characterized by the presence of inactivating mutations in the VHL gene. A large survey for somatic mutations now identifies inactivating mutations in two genes encoding enzymes involved in histone modification, highlighting the role of mutations in components of the chromatin modification machinery in human cancer.

    • Gillian L. Dalgliesh
    • , Kyle Furge
    •  & P. Andrew Futreal

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