幾霜::残日録::2019/01/07 (月)

　昨年の中で最も感銘を受けた論文を紹介します。

Using archived television video footage to quantify phenology responses to climate change
　欧州の伝統ある自転車レース、「ツール・デ・フランドル」(ロンド・ファン・フラーンデレン)の映像アーカイブから植物のフェノロジーを読み取り、気候変動の影響を明らかにした論文。

HiMAP: Robust phylogenomics from highly multiplexed amplicon sequencing
　ゲノムまたはRNA-seqデータのある生物群の単一コピー遺伝子を探索し、多重整列してユニバーサルプライマーを作成してくれるパイプライン。これを使えば容易に対象分類群の単一コピー遺伝子用ユニバーサルプライマーが大量に作成できる。それを使って増幅し、産物を高スループットシーケンサで解読して繋げれば、高解像度・高信頼性の系統樹が比較的安価に得られる。

　以下はその他に記憶に残った論文のリストです。

Large-scale ocean connectivity and planktonic body size

Functional diversity and community assembly of river invertebrates show globally consistent responses to decreasing glacier cover

Retrieval of a million high-quality, full-length microbial 16S and 18S rRNA gene sequences without primer bias

Competition-colonization tradeoffs structure fungal diversity

How sea-level change mediates genetic divergence in coastal species across regions with varying tectonic and sediment processes

Mycorrhizal fungi mediate the direction and strength of plant–soil feedbacks differently between arbuscular mycorrhizal and ectomycorrhizal communities

Late Miocene–mid-Pliocene tectonically induced formation of the semi-closed Japan Sea, inferred from seawater Nd isotopes

Ocean currents and herbivory drive macroalgae-to-coral community shift under climate warming

High-resolution modeling of thermal thresholds and environmental influences on coral bleaching for local and regional reef management

Bayesian Divergence-Time Estimation with Genome-Wide Single-Nucleotide Polymorphism Data of Sea Catfishes (Ariidae) Supports Miocene Closure of the Panamanian Isthmus

Morphological and ecological adaptation of limpet-shaped top shells (Gastropoda: Trochidae: Fossarininae) to wave-swept rock reef habitats

Comparative phylogeography of diadromous and freshwater daces of the genus Tribolodon (Cyprinidae)

A generalist herbivore requires a wide array of plant species to maintain its populations

A Sequel to Sanger: amplicon sequencing that scales

Clustering huge protein sequence sets in linear time

MUMmer4: A fast and versatile genome alignment system

EukRef: Phylogenetic curation of ribosomal RNA to enhance understanding of eukaryotic diversity and distribution

fastp: an ultra-fast all-in-one FASTQ preprocessor

Simple statistical identification and removal of contaminant sequences in marker-gene and metagenomics data

　今年もよろしくお願いします。昨年は途中で力尽きて更新を止めてしまいましたが、今年こそということで今日から再開します。