TraitMech

TraitMech › PHYSIOLOGY

replicative aging with functional decline

traitmech:000709 · CLASS · PROPOSED

A physiological phenotype in which microbial cells exhibit declining growth or reproductive performance, or increasing mortality risk, with increasing replicative age under specified conditions.

Trait evidence (4)

  • DOI:10.1098/rstb.2018.0442
    For both cell types, division time progressively increased over successive generations

    Lapinska et al. 2019, PMID:31587633, PMC6792439; Figure 2 caption, directly checked in primary full-text XML and the author-hosted PDF. The Introduction defines aging by declining performance. Figure 2 was visually inspected: the early division-time trend approaches a plateau in the longer run, not indefinite deterioration. Methods separate brightfield aging measurements from fluorescent uptake/aggregation assays. Methods name BW25113, but the Introduction says BW21113; that discrepancy is unresolved. Starting-condition effects remain a limitation. No universal protein mechanism is established.

  • DOI:10.1186/1471-2148-7-126
    Aging refers to a decline in reproduction and survival with increasing age.

    Ackermann et al. 2007, PMID:17662151, PMC2174458; scientific abstract Background, directly checked against MED and primary full-text XML. Caulobacter stalked-cell cohorts showed age-dependent loss of reproductive function, with both faster and slower aging among evolved clones. This endpoint combines survival and reproduction and cannot separate them. UJ590 is a pilA-deletion derivative, not an unmodified natural exemplar. Its elapsed-time assay complements, rather than replaces, the division-indexed evidence above.

  • DOI:10.7554/eLife.20340
    Surprisingly, cells die without the classic hallmarks of cellular aging, such as progressive changes in size, doubling time, or sibling health.

    Spivey et al. 2017, PMID:28139976, PMC5332158; scientific abstract, not the eLife digest, directly checked against MED and primary full-text XML. Boundary evidence: finite replicative lifespan and its extension do not alone demonstrate age-dependent deterioration. The reported age-independent mortality applies to the measured fission-yeast conditions, not all strains and environments. The abstract and Discussion were assessed, not all experiments or figure images.

  • DOI:10.1371/journal.pbio.3002245
    This occurs without an increase in lifespan, proving that at least in yeast, lifespan is distinct from senescence and loss of fitness.

    Horkai et al. 2023, PMID:37643155, PMC10464975; Results, Suppression of age-linked phenotypic change, directly checked against publisher text and primary XML. Galactose-aged diploid MEP cells retained better performance without longer lifespan. This engineered mother-enrichment system and its platform-dependent results are not universal natural-taxon claims. The authors also use replicative ageing for passage through divisions without senescent decline; that broader usage is not the operational phenotype defined here.

Provenance

Identifier source
TraitMech local identifier
Definition source
DOI:10.1098/rstb.2018.0442

Parent traits (1)

kg-microbe context

No kg-microbe node embedding matched this record in the 2026-04-25 deepwalk.

Discussions and Knowledge Gaps (2)

Open questions attached to this trait. Seeded by just knowledge-gap-scan and curated; see the corpus-wide index.

Assess remaining upstream terminology for the explicitly decline-qualified phenotype.

CURATION TODO OPEN replicative-aging-operational-scope · raised by codex · 2026-10-12

Not yet attached to a section of this record — a curator sets attaches_to (e.g. causal_graphs#some_edge) so the gap shows beside the mechanism it concerns.

Replicative age follows a cell or inherited cell lineage across successive divisions; culture age alone is not that measurement. Use age-resolved performance or mortality risk, not merely a finite lifespan, old-pole identity, endpoint death, cumulative survival loss or an old/new sibling difference. A decline can approach a plateau; continuous worsening until death is not required. The record uses the functional-decline sense of aging, while Horkai et al. 2023 explicitly distinguish senescence from broader replicative ageing. The label is now explicitly qualified as replicative aging with functional decline (#1891); bare replicative aging is not asserted as an exact synonym. Upstream review should assess remaining terminology and hierarchy choices; no external xref is asserted. Chronological survival in nondividing cultures, population-wide clonal senescence and irreversible mammalian cell-cycle arrest are not equated with this phenotype. The existing gram-variable culture_aging node denotes stationary-phase conditions and is not an exact grounding target. METPO:1000059 phenotype is the conservative broader class; no existing record is reparented.

Resolve strain provenance and taxon-scoped mechanisms without inferring them from lifespan or markers.

KNOWLEDGE GAP OPEN replicative-aging-mechanism-and-example-limits · raised by codex · 2026-10-12

Not yet attached to a section of this record — a curator sets attaches_to (e.g. causal_graphs#some_edge) so the gap shows beside the mechanism it concerns.

This is an assayable cellular phenotype, not a locus, protein profile, numeric lifespan field or claim that all microbes age under all conditions. No canonical example is asserted pending strain-provenance and taxonomy checks, including the 2019 strain-name discrepancy. A protein-resolved causal graph is deferred; non-detection of visible aggregates does not exclude all damage, and correlations with fluorescent markers do not establish universal causes. Supplements and raw data were not independently reanalysed. MED and Crossref notice fields were checked on 2026-10-12; a linked preprint or evaluation is not independent experimental support. Publisher access was incomplete for the 2017 and 2019 papers, so no exhaustive notice-absence claim is made. Pinned/current METPO and ignored/hidden repository searches found no exact term in the inspected sources; the pinned ontology is unchanged.

Curation history

  1. · MINTED_TRAITMECH_ID · codex

    Added a decline-based replicative-aging phenotype with four primary DOIs and directly checked snippets; retained lifespan, terminology and strain limitations. Reserved 000709, v585 and 1066200-1066299 after ignored/hidden current-file, registered historical-tree and pending-PR checks. Examples and mechanism graph are deferred. Existing traits unchanged; timestamp is the observed UTC curation decision.

  2. · QUALIFIED_TRAIT_LABEL · codex

    Addressed #1891 by qualifying the record and v585 proposal label as replicative aging with functional decline. Preserved the definition, evidence, identifier and original provenance; retained the broader healthy-aging usage as an attributed distinction, not an exact synonym. Timestamp is the observed UTC correction decision.

Recorded curation sessions

  • · codex
    • CREATE — Add source-qualified replicative aging phenotype

      Added traitmech:000709 as PROPOSED under METPO:1000059 with four primary DOI citations and directly checked abstract/full-text snippets. Preserved lifespan, strain, terminology and mechanism limitations. Reserved proposal v585 and METPO:1066200-1066299 after current and registered historical worktree searches including ignored/hidden files and fresh pending-PR checks. No existing TraitRecord, canonical example or causal graph was changed. Focused writer tests and validated dry run passed before application; broader gates and adversarial review follow.

    Read this curation session
  • · codex
    • EDIT — Qualify replicative-aging label to match functional decline (#1891)

      Adversarial source review found that the bare aging label also denotes healthy age progression in Horkai et al. 2023. A guarded correction qualifies the record and v585 proposal label without changing identifier, definition, evidence or original history. Scope discussion retains remaining upstream terminology questions. Correction writer dry run and 31 focused regression tests passed; full final gates follow regeneration.

    Read this curation session