# New insights into the feeding behaviour of the Japanese squid Todarodes pacificus paralarvae, and a combined analysis of metagenome and amino acid isotope ratios

**Authors:** Kohsuke Adachi, Yoshito Chikaraishi, Sinpei Nomura, Naoko Goto-Inoue, Nobuhiro Zaima, Yuki Kuriya, Michihiro Araki, Katsuji Morioka, Takashi Yanagimoto, Mitsuhiro Nakaya, Jun Yamamoto

PMC · DOI: 10.1371/journal.pone.0340579 · PLOS One · 2026-03-16

## TL;DR

This study explores the diet of young Japanese flying squid in the wild using genetic and isotope analysis, revealing they mainly eat herbivorous organisms.

## Contribution

The study combines metagenomic and amino acid isotope analysis to provide new insights into the feeding behavior of squid paralarvae.

## Key findings

- Metagenomic analysis detected bacteria like Burkholderiales and Xanthomonadales in squid paralarvae.
- Amino acid isotope analysis showed a trophic position of 3.0, indicating a carnivorous diet on herbivores.
- Half of the paralarval digestive glands were empty, suggesting variable feeding patterns.

## Abstract

The Japanese flying squid Todarodes pacificus (Ommastrephidae) is a commercially and ecologically important species; however, there remains much room for investigation in its early life phase, especially its diet in wild environments. After excising the digestive gland (cecum sac) of wild paralarvae of T. pacificus using Laser Microdissection (LMD), the dietary species were estimated via metagenomic analysis. The 16S rRNA analysis predominantly detected Burkholderiales and Xanthomonadales, regardless of mantle length (ML) of T. pacificus and capture area. COI (Cytochrome c oxidase subunit I) analysis detected in various organisms including Discosea, Arthropoda, Nemertea, Porifera, golden algae, and fungi (Ascomycota and Basidiomycota), which were found irregularly. About half of the paralarval cecum sacs were found empty during the histological analysis. We also estimated the trophic position (TP) of wild paralarvae in the same sea region via stable isotope analysis of amino acids. The TP estimated was 3.0 for all larval groups regardless of ML, suggesting that the trophic tendency of paralarvae is carnivorous, likely feeding on herbivorous organisms. Taken together, our results suggest that the paralarvae feed mostly on various kinds of living herbivorous organisms and partly on detritus.

## Linked entities

- **Species:** Todarodes pacificus (taxon 6637), Burkholderiales (taxon 80840), Discosea (taxon 555280), Arthropoda (taxon 6656), Nemertea (taxon 6217), Porifera (taxon 6040), Ascomycota (taxon 4890), Basidiomycota (taxon 5204)

## Full-text entities

- **Diseases:** ML (MESH:D020522), hypoxic (MESH:D002534), Artificial detritus (MESH:D060437)
- **Chemicals:** thionyl chloride (MESH:C023589), formalin (MESH:D005557), glycogen (MESH:D006003), PEN (MESH:C000597025), PBS (MESH:D007854), amino acid (MESH:D000596), dichloromethane (MESH:D008752), Glu (MESH:D018698), HCl (MESH:D006851), ammonia (MESH:D000641), hydrocarbon (MESH:D006838), NaCl (MESH:D012965), glucose (MESH:D005947), nitrogen (MESH:D009584), isopropanol (MESH:D019840), water (MESH:D014867), Phe (MESH:D010649), n-hexane (MESH:C026385), pivaloyl chloride (MESH:C059099), Hematoxylin-Eosin (-), nitrate (MESH:D009566), Ala (MESH:D000409), Toluidine Blue O. (MESH:D014048), oxygen (MESH:D010100), ethanol (MESH:D000431), SDS (MESH:D012967), iron (MESH:D007501), EDTA (MESH:D004492), TCA (MESH:D014238)
- **Species:** Illex illecebrosus (species) [taxon 6629], Amoebozoa (amoebozoans, clade) [taxon 554915], Cochliopodium arabianum (species) [taxon 1676989], Lysobacterales (order) [taxon 135614], Ommastrephidae (arrow squids, family) [taxon 6626], Saccharomyces cerevisiae (baker's yeast, species) [taxon 4932], Harnischia japonica (species) [taxon 1646552], Cerebratulus (genus) [taxon 6220], Nemertea (bootlace worms, phylum) [taxon 6217], Chrysophyceae (chrysomonads, class) [taxon 2825], PX clade (clade) [taxon 569578], Todarodes pacificus (Japanese flying squid, species) [taxon 6637], Betaproteobacteria (b-proteobacteria, class) [taxon 28216], Mus musculus (house mouse, species) [taxon 10090], Poterioochromonas malhamensis (species) [taxon 88167], Burkholderiales (order) [taxon 80840], Pseudopleuronectes yokohamae (marbled flounder, species) [taxon 245875], Pedospumella sinomuralis (species) [taxon 1841648], Eisenia fetida (brandling worm, species) [taxon 6396], Bacteria Latreille et al. 1825 (Bacteria stick insect, genus) [taxon 629395], Illex argentinus (Argentinian squid, species) [taxon 6628], Discosea (phylum) [taxon 555280], Chironomus thummi (midge, species) [taxon 7154], Acanthamoeba castellanii (species) [taxon 5755], Dosidicus gigas (jumbo flying squid, species) [taxon 346249], Porifera (sponges, phylum) [taxon 6040], Pseudomonadota (proteobacteria, phylum) [taxon 1224], crustaceans [taxon 6657]

## Full text

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## Figures

6 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12991261/full.md

## References

44 references — full list in the complete paper: https://tomesphere.com/paper/PMC12991261/full.md

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Source: https://tomesphere.com/paper/PMC12991261