A ‘sibling’ species of the model organism Caenorhabditis elegans has long been sought for use in comparative analyses that would enable deep evolutionary interpretations of biological phenomena. Here, we describe the first sibling species of C. elegans, C. inopinata n. sp., isolated from fig syconia in Okinawa, Japan. We investigate the morphology, developmental processes and behaviour of C. inopinata, which differ significantly from those of C. elegans. The 123-Mb C. inopinata genome was sequenced and assembled into six nuclear chromosomes, allowing delineation of Caenorhabditis genome evolution and revealing unique characteristics, such as highly expanded transposable elements that might have contributed to the genome evolution of C. inopinata. In addition, C. inopinata exhibits massive gene losses in chemoreceptor gene families, which could be correlated with its limited habitat area. We have developed genetic and molecular techniques for C. inopinata; thus C. inopinata provides an exciting new platform for comparative evolutionary studies.

Peroxisomal β-oxidation (pβo) is a highly conserved fat metabolism pathway involved in the biosynthesis of diverse signaling molecules in animals and plants. In Caenorhabditis elegans, pβo is required for the biosynthesis of the ascarosides, signaling molecules that control development, lifespan, and behavior in this model organism. Via comparative mass spectrometric analysis of pβo mutants and wildtype, we show that pβo in C. elegans and the satellite model P. pacificus contributes to life stage-specific biosynthesis of several hundred previously unknown metabolites. The pβo-dependent portion of the metabolome is unexpectedly diverse, e.g., intersecting with nucleoside and neurotransmitter metabolism. Cell type-specific restoration of pβo in pβo-defective mutants further revealed that pβo-dependent submetabolomes differ between tissues. These results suggest that interactions of fat, nucleoside, and other primary metabolism pathways can generate structural diversity reminiscent of that arising from combinatorial strategies in microbial natural product biosynthesis.

The nematode Caenorhabditis elegans uses simple building blocks from primary metabolism and a strategy of modular assembly to build a great diversity of signaling molecules, the ascarosides, which function as a chemical language in this model organism. In the ascarosides, the dideoxysugar ascarylose serves as a scaffold to which diverse moieties from lipid, amino acid, neurotransmitter, and nucleoside metabolism are attached. However, the mechanisms that underlie the highly specific assembly of ascarosides are not understood. We show that the acyl-CoA synthetase ACS-7, which localizes to lysosome-related organelles, is specifically required for the attachment of different building blocks to the 4′-position of ascr#9. We further show that mutants lacking lysosome-related organelles are defective in the production of all 4′-modified ascarosides, thus identifying the waste disposal system of the cell as a hotspot for ascaroside biosynthesis.

We report the first case of a metal complex that degrades a neurotoxin mimic under extremely mild conditions (pH 6.8, room temperature). The metallocene bis(η5-cyclopentadienyl)molybdenum(IV) dichloride (Cp2MoCl2; Cp = η5-C5H5) efficiently hydrolyzes the compound O,S-diethyl phenylphosphonothioate (DEPP), whose core functional group mimics the neurotoxin VX. Moreover, this is one of the few examples where phosphonothioate degradation yields exclusively the desired P−S bond scission under mild aqueous conditions (pH 7.2, 30 °C). Activation parameters for DEPP hydrolysis by Cp2MoCl2 in aqueous THF/acetone indicate (E a = 86 kJ/mol, ΔH ⧧= 83 kJ/mol, and ΔS ⧧ = −10 J/(mol K)) an intramolecular hydrolytic process that goes through an ordered transition state. Alteration of the cyclopentadienyl ligand showed that ansa-Cp2MoCl2 with enhanced Mo(IV) electrophilicity significantly decreased DEPP hydrolysis, while (CpMe)2MoCl2 with increased Mo(IV) electron density had the opposite effect. These structure–activity relationships as well as the activation parameters indicate DEPP hydrolysis is achieved by nucleophilic attack of a Cp2Mo-bound hydroxide on the phosphonothioate.