Ryuji J. Machida

3.7k total citations · 1 hit paper
43 papers, 2.4k citations indexed

About

Ryuji J. Machida is a scholar working on Ecology, Molecular Biology and Oceanography. According to data from OpenAlex, Ryuji J. Machida has authored 43 papers receiving a total of 2.4k indexed citations (citations by other indexed papers that have themselves been cited), including 34 papers in Ecology, 23 papers in Molecular Biology and 19 papers in Oceanography. Recurrent topics in Ryuji J. Machida's work include Marine Biology and Ecology Research (19 papers), Environmental DNA in Biodiversity Studies (15 papers) and Genomics and Phylogenetic Studies (13 papers). Ryuji J. Machida is often cited by papers focused on Marine Biology and Ecology Research (19 papers), Environmental DNA in Biodiversity Studies (15 papers) and Genomics and Phylogenetic Studies (13 papers). Ryuji J. Machida collaborates with scholars based in Taiwan, Japan and United States. Ryuji J. Machida's co-authors include Matthieu Leray, Nancy Knowlton, Chris Meyer, Joy Yang, Suzanne C. Mills, Vincent Ranwez, J. T. Boehm, Shuhei Nishida, Mutsumi Nishida and Masaki Miya and has published in prestigious journals such as Proceedings of the National Academy of Sciences, Bioinformatics and PLoS ONE.

In The Last Decade

Ryuji J. Machida

40 papers receiving 2.4k citations

Hit Papers

align trajectories

What are hit papers?

Hit papers significantly outperform the citation benchmark for their cohort. A paper qualifies if it has ≥500 total citations, achieves ≥1.5× the top-1% citation threshold for papers in the same subfield and year (this is the minimum needed to enter the top 1%, not the average within it), or reaches the top citation threshold in at least one of its specific research topics.

A new versatile primer set targeting a short fragment of the mitochondrial COI region for metabarcoding metazoan diversity: application for characterizing coral reef fish gut contents

2013 1.1k citations Matthieu Leray, Joy Yang et al. Frontiers in Zoology profile →

Peers

Ryuji J. Machida

ECOLO

OCEAN

GPC

GENET

Matthieu Leray United States

Owen S. Wangensteen Spain

Martin Schlegel Germany

Michael J. Raupach Germany

Rupert A. Collins United Kingdom

J. T. Boehm United States

Frederick I. Archer United States

Filipe O. Costa Portugal

Jean‐François Flot Belgium

Vera G. Fonseca United Kingdom

Matthieu Leray United States

Ryuji J. Machida

2.7k ×1.4

ECOLO

1.8k ×1.2

438 ×1.2

OCEAN

540 ×1.7

GPC

185 ×0.9

GENET

Citations per year, relative to Ryuji J. Machida Ryuji J. Machida (= 1×) peers Matthieu Leray

Countries citing papers authored by Ryuji J. Machida

Since Specialization

Citations

This map shows the geographic impact of Ryuji J. Machida's research. It shows the number of citations coming from papers published by authors working in each country. You can also color the map by specialization and compare the number of citations received by Ryuji J. Machida with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Ryuji J. Machida more than expected).

Fields of papers citing papers by Ryuji J. Machida

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Ryuji J. Machida. Nodes represent research fields, and links connect fields that are likely to share authors. Colored nodes show fields that tend to cite the papers produced by Ryuji J. Machida. The network helps show where Ryuji J. Machida may publish in the future.

Co-authorship network of co-authors of Ryuji J. Machida

This figure shows the co-authorship network connecting the top 25 collaborators of Ryuji J. Machida. A scholar is included among the top collaborators of Ryuji J. Machida based on the total number of citations received by their joint publications. Widths of edges represent the number of papers authors have co-authored together. Node borders signify the number of papers an author published with Ryuji J. Machida. Ryuji J. Machida is excluded from the visualization to improve readability, since they are connected to all nodes in the network.

All Works

Sort: Min cites: Since: Top N: Style:

20 of 20 papers shown

Pappalardo, Paula, Jan M. Hemmi, Ryuji J. Machida, et al.. (2025). Taxon‐specific BLAST percent identity thresholds for identification of unknown sequences using metabarcoding. Methods in Ecology and Evolution. 16(10). 2380–2394.

Machida, Ryuji J., et al.. (2024). A new species of Pseudodiaptomus (Copepoda, Calanoida, Pseudodiaptomidae) from the coastal waters of northern Taiwan with notes on co-occurring and previously recorded species. Crustaceana. 97(10-11). 1255–1279.

Dreyer, Niklas, Hsin‐Han Lee, Benny K. K. Chan, et al.. (2023). The mitochondrial genome ofIsognomon nucleusand mitogenomics of pteriomorphia (Bivalvia: Autobranchia). Journal of Molluscan Studies. 89(1). 1 indexed citations

Schneider, Stephan, et al.. (2022). Allometric scaling of interspecific RNA transcript abundance to extend the use of metatranscriptomics in characterizing complex communities. Molecular Ecology Resources. 23(1). 52–63. 5 indexed citations

Lee, Hsin‐Han, Niklas Dreyer, Tzi‐Yuan Wang, et al.. (2022). Utilisation of Oxford Nanopore sequencing to generate six complete gastropod mitochondrial genomes as part of a biodiversity curriculum. Scientific Reports. 12(1). 9973–9973. 15 indexed citations

Machida, Ryuji J., et al.. (2021). To the light side: molecular diversity and morphology of stomatopod larvae and juveniles (Crustacea: Malacostraca: Stomatopoda) from crustose coralline algal reefs in Taiwan. Marine Biodiversity. 51(2). 2 indexed citations

Sato, M., et al.. (2021). Using metatranscriptomics to estimate the diversity and composition of zooplankton communities. Molecular Ecology Resources. 22(2). 638–652. 12 indexed citations

Miki, Takeshi, et al.. (2019). Nuclear and mitochondrial ribosomal ratio as an index of animal growth rate. Limnology and Oceanography Methods. 17(11). 575–584. 2 indexed citations

White, Kristine N. & Ryuji J. Machida. (2018). Taiwanese Leucothoidae (Crustacea: Amphipoda), Including Three New Species from Dongsha Atoll.. PubMed Central. 57. e47–e47. 3 indexed citations

10.

Pearman, John K., Matthieu Leray, Rodrigo Villalobos, et al.. (2018). Cross-shelf investigation of coral reef cryptic benthic organisms reveals diversity patterns of the hidden majority. Scientific Reports. 8(1). 8090–8090. 61 indexed citations

11.

Machida, Ryuji J., et al.. (2017). Metazoan mitochondrial gene sequence reference datasets for taxonomic assignment of environmental samples. Scientific Data. 4(1). 170027–170027. 128 indexed citations

12.

Machida, Ryuji J., et al.. (2017). Occurrence of mitochondrial CO1 pseudogenes in Neocalanus plumchrus (Crustacea: Copepoda): Hybridization indicated by recombined nuclear mitochondrial pseudogenes. PLoS ONE. 12(2). e0172710–e0172710. 8 indexed citations

13.

Leray, Matthieu, Joy Yang, Chris Meyer, et al.. (2013). A new versatile primer set targeting a short fragment of the mitochondrial COI region for metabarcoding metazoan diversity: application for characterizing coral reef fish gut contents. Frontiers in Zoology. 10(1). 34–34. 1089 indexed citations breakdown →

14.

Machida, Ryuji J., et al.. (2012). PCR Primers for Metazoan Mitochondrial 12S Ribosomal DNA Sequences. PLoS ONE. 7(4). e35887–e35887. 26 indexed citations

15.

Machida, Ryuji J. & Nancy Knowlton. (2012). PCR Primers for Metazoan Nuclear 18S and 28S Ribosomal DNA Sequences. PLoS ONE. 7(9). e46180–e46180. 96 indexed citations

16.

Machida, Ryuji J. & Atsushi Tsuda. (2010). Dissimilarity of Species and Forms of Planktonic Neocalanus Copepods Using Mitochondrial COI, 12S, Nuclear ITS, and 28S Gene Sequences. PLoS ONE. 5(4). e10278–e10278. 37 indexed citations

17.

Machida, Ryuji J., Yasuyuki Hashiguchi, Mutsumi Nishida, & Shuhei Nishida. (2009). Zooplankton diversity analysis through single-gene sequencing of a community sample. BMC Genomics. 10(1). 438–438. 60 indexed citations

18.

Miya, Masaki, et al.. (2004). PCR-Based Approach for Sequencing Mitochondrial Genomes of Decapod Crustaceans, with a Practical Example from Kuruma Prawn (Marsupenaeus japonicus). Marine Biotechnology. 6(5). 419–429. 50 indexed citations

19.

Machida, Ryuji J., Masaki Miya, Mutsumi Nishida, & Shuhei Nishida. (2002). Complete Mitochondrial DNA Sequence of Tigriopus japonicus (Crustacea: Copepoda). Marine Biotechnology. 4(4). 406–417. 130 indexed citations

20.

Shimizu, Y., et al.. (1981). Species variations in the gel-forming characteristics of fish meat paste.. Bulletin of the Japanese Society of Scientific Fisheries. 47. 95–104. 71 indexed citations

Rankless uses publication and citation data sourced from OpenAlex, an open and comprehensive bibliographic database. While OpenAlex provides broad and valuable coverage of the global research landscape, it—like all bibliographic datasets—has inherent limitations. These include incomplete records, variations in author disambiguation, differences in journal indexing, and delays in data updates. As a result, some metrics and network relationships displayed in Rankless may not fully capture the entirety of a scholar's output or impact.

Explore authors with similar magnitude of impact