{"bundle_type":"pith_open_graph_bundle","bundle_version":"1.0","pith_number":"pith:2025:JOXXPQRVU2RYGATVX6NGIHWFRW","short_pith_number":"pith:JOXXPQRV","canonical_record":{"source":{"id":"2506.00692","kind":"arxiv","version":1},"metadata":{"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.PE","submitted_at":"2025-05-31T19:53:54Z","cross_cats_sorted":[],"title_canon_sha256":"67e32d595c94b35c4573729a4f566b8bee41eade8734a4105c8edc3ce9dfc246","abstract_canon_sha256":"4577f3a9275eb6c5dc729492df51db122090b5d3b226dd242a9b56f1a8dc2a7c"},"schema_version":"1.0"},"canonical_sha256":"4baf77c235a6a3830275bf9a641ec58d8dfc872f338991dfd1aa7bfd030a1250","source":{"kind":"arxiv","id":"2506.00692","version":1},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2506.00692","created_at":"2026-07-05T11:13:38Z"},{"alias_kind":"arxiv_version","alias_value":"2506.00692v1","created_at":"2026-07-05T11:13:38Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2506.00692","created_at":"2026-07-05T11:13:38Z"},{"alias_kind":"pith_short_12","alias_value":"JOXXPQRVU2RY","created_at":"2026-07-05T11:13:38Z"},{"alias_kind":"pith_short_16","alias_value":"JOXXPQRVU2RYGATV","created_at":"2026-07-05T11:13:38Z"},{"alias_kind":"pith_short_8","alias_value":"JOXXPQRV","created_at":"2026-07-05T11:13:38Z"}],"events":[{"event_type":"record_created","subject_pith_number":"pith:2025:JOXXPQRVU2RYGATVX6NGIHWFRW","target":"record","payload":{"canonical_record":{"source":{"id":"2506.00692","kind":"arxiv","version":1},"metadata":{"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.PE","submitted_at":"2025-05-31T19:53:54Z","cross_cats_sorted":[],"title_canon_sha256":"67e32d595c94b35c4573729a4f566b8bee41eade8734a4105c8edc3ce9dfc246","abstract_canon_sha256":"4577f3a9275eb6c5dc729492df51db122090b5d3b226dd242a9b56f1a8dc2a7c"},"schema_version":"1.0"},"canonical_sha256":"4baf77c235a6a3830275bf9a641ec58d8dfc872f338991dfd1aa7bfd030a1250","receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-07-05T11:13:38.905649Z","signature_b64":"TxyikPbOSN6ZQ82DI/k3FQ+oz4xaR8BB+pIVdVOVhQP/8PgJiEHV/cer8g1kTZjs3eizUlL0+wyuMAn6X2ZyBA==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"4baf77c235a6a3830275bf9a641ec58d8dfc872f338991dfd1aa7bfd030a1250","last_reissued_at":"2026-07-05T11:13:38.905134Z","signature_status":"signed_v1","first_computed_at":"2026-07-05T11:13:38.905134Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"source_kind":"arxiv","source_id":"2506.00692","source_version":1,"attestation_state":"computed"},"signer":{"signer_id":"pith.science","signer_type":"pith_registry","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"created_at":"2026-07-05T11:13:38Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"BVJX0dZ5vmf2M8kMJw7bwnIZ2flnriMM0iGwNwqnGvJ++sSj2a5uFioPrz40wGvdYkZqIHM4ZegsmZ1dsvpyDQ==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-08-09T06:58:38.127411Z"},"content_sha256":"c60dd2235dffcdd5db008ff5552199ba53bb772d485d2d4d873cc0422d6d08d6","schema_version":"1.0","event_id":"sha256:c60dd2235dffcdd5db008ff5552199ba53bb772d485d2d4d873cc0422d6d08d6"},{"event_type":"graph_snapshot","subject_pith_number":"pith:2025:JOXXPQRVU2RYGATVX6NGIHWFRW","target":"graph","payload":{"graph_snapshot":{"paper":{"title":"Not Just $N_e$ $N_e$-more: New Applications for SMC from Ecology to Phylogenies","license":"http://creativecommons.org/licenses/by/4.0/","headline":"","cross_cats":[],"primary_cat":"q-bio.PE","authors_text":"Alba Nieto, Anastasia Ignatieva, Arun Durvasula, David Peede, Elizabeth T. Chevy, Emily E. Puckett, Toby G. L. Kovacs, Trevor Cousins","submitted_at":"2025-05-31T19:53:54Z","abstract_excerpt":"Genomes contain the mutational footprint of an organism's evolutionary history, shaped by diverse forces including ecological factors, selective pressures, and life history traits. The sequentially Markovian coalescent (SMC) is a versatile and tractable model for the genetic genealogy of a sample of genomes, which captures this shared history. Methods that utilize the SMC, such as PSMC and MSMC, have been widely used in evolution and ecology to infer demographic histories. However, these methods ignore common biological features, such as gene flow events and structural variation. Recently, the"},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2506.00692","kind":"arxiv","version":1},"verdict":{"id":null,"model_set":{},"created_at":null,"strongest_claim":"","one_line_summary":"","pipeline_version":null,"weakest_assumption":"","pith_extraction_headline":""},"integrity":{"clean":true,"summary":{"advisory":0,"critical":0,"by_detector":{},"informational":0},"endpoint":"/pith/2506.00692/integrity.json","findings":[],"available":true,"detectors_run":[],"snapshot_sha256":"c28c3603d3b5d939e8dc4c7e95fa8dfce3d595e45f758748cecf8e644a296938"},"references":{"count":0,"sample":[],"resolved_work":0,"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57","internal_anchors":0},"formal_canon":{"evidence_count":0,"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"author_claims":{"count":0,"strong_count":0,"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"builder_version":"pith-number-builder-2026-05-17-v1"},"verdict_id":null},"signer":{"signer_id":"pith.science","signer_type":"pith_registry","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"created_at":"2026-07-05T11:13:38Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"TI5EcLSHJN57yRzIor72lqE93QF7qEHqKHppHOWHLSvnLKqLuiKIZ5QjBUXLYNeehSOgV1PcbOssl4OKqb4QBA==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-08-09T06:58:38.127926Z"},"content_sha256":"e793760db437975bcf550082983922400747a954e30792fa87c423ccadd50574","schema_version":"1.0","event_id":"sha256:e793760db437975bcf550082983922400747a954e30792fa87c423ccadd50574"}],"timestamp_proofs":[],"mirror_hints":[{"mirror_type":"https","name":"Pith Resolver","base_url":"https://pith.science","bundle_url":"https://pith.science/pith/JOXXPQRVU2RYGATVX6NGIHWFRW/bundle.json","state_url":"https://pith.science/pith/JOXXPQRVU2RYGATVX6NGIHWFRW/state.json","well_known_bundle_url":"https://pith.science/.well-known/pith/JOXXPQRVU2RYGATVX6NGIHWFRW/bundle.json","status":"primary"}],"public_keys":[{"key_id":"pith-v1-2026-05","algorithm":"ed25519","format":"raw","public_key_b64":"stVStoiQhXFxp4s2pdzPNoqVNBMojDU/fJ2db5S3CbM=","public_key_hex":"b2d552b68890857171a78b36a5dccf368a953413288c353f7c9d9d6f94b709b3","fingerprint_sha256_b32_first128bits":"RVFV5Z2OI2J3ZUO7ERDEBCYNKS","fingerprint_sha256_hex":"8d4b5ee74e4693bcd1df2446408b0d54","rotates_at":null,"url":"https://pith.science/pith-signing-key.json","notes":"Pith uses this Ed25519 key to sign canonical record SHA-256 digests. Verify with: ed25519_verify(public_key, message=canonical_sha256_bytes, signature=base64decode(signature_b64))."}],"merge_version":"pith-open-graph-merge-v1","built_at":"2026-08-09T06:58:38Z","links":{"resolver":"https://pith.science/pith/JOXXPQRVU2RYGATVX6NGIHWFRW","bundle":"https://pith.science/pith/JOXXPQRVU2RYGATVX6NGIHWFRW/bundle.json","state":"https://pith.science/pith/JOXXPQRVU2RYGATVX6NGIHWFRW/state.json","well_known_bundle":"https://pith.science/.well-known/pith/JOXXPQRVU2RYGATVX6NGIHWFRW/bundle.json"},"state":{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2025:JOXXPQRVU2RYGATVX6NGIHWFRW","merge_version":"pith-open-graph-merge-v1","event_count":2,"valid_event_count":2,"invalid_event_count":0,"equivocation_count":0,"current":{"canonical_record":{"metadata":{"abstract_canon_sha256":"4577f3a9275eb6c5dc729492df51db122090b5d3b226dd242a9b56f1a8dc2a7c","cross_cats_sorted":[],"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.PE","submitted_at":"2025-05-31T19:53:54Z","title_canon_sha256":"67e32d595c94b35c4573729a4f566b8bee41eade8734a4105c8edc3ce9dfc246"},"schema_version":"1.0","source":{"id":"2506.00692","kind":"arxiv","version":1}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2506.00692","created_at":"2026-07-05T11:13:38Z"},{"alias_kind":"arxiv_version","alias_value":"2506.00692v1","created_at":"2026-07-05T11:13:38Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2506.00692","created_at":"2026-07-05T11:13:38Z"},{"alias_kind":"pith_short_12","alias_value":"JOXXPQRVU2RY","created_at":"2026-07-05T11:13:38Z"},{"alias_kind":"pith_short_16","alias_value":"JOXXPQRVU2RYGATV","created_at":"2026-07-05T11:13:38Z"},{"alias_kind":"pith_short_8","alias_value":"JOXXPQRV","created_at":"2026-07-05T11:13:38Z"}],"graph_snapshots":[{"event_id":"sha256:e793760db437975bcf550082983922400747a954e30792fa87c423ccadd50574","target":"graph","created_at":"2026-07-05T11:13:38Z","signer":{"key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signer_id":"pith.science","signer_type":"pith_registry"},"payload":{"graph_snapshot":{"author_claims":{"count":0,"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57","strong_count":0},"builder_version":"pith-number-builder-2026-05-17-v1","claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"formal_canon":{"evidence_count":0,"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"integrity":{"available":true,"clean":true,"detectors_run":[],"endpoint":"/pith/2506.00692/integrity.json","findings":[],"snapshot_sha256":"c28c3603d3b5d939e8dc4c7e95fa8dfce3d595e45f758748cecf8e644a296938","summary":{"advisory":0,"by_detector":{},"critical":0,"informational":0}},"paper":{"abstract_excerpt":"Genomes contain the mutational footprint of an organism's evolutionary history, shaped by diverse forces including ecological factors, selective pressures, and life history traits. The sequentially Markovian coalescent (SMC) is a versatile and tractable model for the genetic genealogy of a sample of genomes, which captures this shared history. Methods that utilize the SMC, such as PSMC and MSMC, have been widely used in evolution and ecology to infer demographic histories. However, these methods ignore common biological features, such as gene flow events and structural variation. Recently, the","authors_text":"Alba Nieto, Anastasia Ignatieva, Arun Durvasula, David Peede, Elizabeth T. Chevy, Emily E. Puckett, Toby G. L. Kovacs, Trevor Cousins","cross_cats":[],"headline":"","license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.PE","submitted_at":"2025-05-31T19:53:54Z","title":"Not Just $N_e$ $N_e$-more: New Applications for SMC from Ecology to Phylogenies"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2506.00692","kind":"arxiv","version":1},"verdict":{"created_at":null,"id":null,"model_set":{},"one_line_summary":"","pipeline_version":null,"pith_extraction_headline":"","strongest_claim":"","weakest_assumption":""}},"verdict_id":null}}],"author_attestations":[],"timestamp_anchors":[],"storage_attestations":[],"citation_signatures":[],"replication_records":[],"corrections":[],"mirror_hints":[],"record_created":{"event_id":"sha256:c60dd2235dffcdd5db008ff5552199ba53bb772d485d2d4d873cc0422d6d08d6","target":"record","created_at":"2026-07-05T11:13:38Z","signer":{"key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signer_id":"pith.science","signer_type":"pith_registry"},"payload":{"attestation_state":"computed","canonical_record":{"metadata":{"abstract_canon_sha256":"4577f3a9275eb6c5dc729492df51db122090b5d3b226dd242a9b56f1a8dc2a7c","cross_cats_sorted":[],"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"q-bio.PE","submitted_at":"2025-05-31T19:53:54Z","title_canon_sha256":"67e32d595c94b35c4573729a4f566b8bee41eade8734a4105c8edc3ce9dfc246"},"schema_version":"1.0","source":{"id":"2506.00692","kind":"arxiv","version":1}},"canonical_sha256":"4baf77c235a6a3830275bf9a641ec58d8dfc872f338991dfd1aa7bfd030a1250","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"4baf77c235a6a3830275bf9a641ec58d8dfc872f338991dfd1aa7bfd030a1250","first_computed_at":"2026-07-05T11:13:38.905134Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-07-05T11:13:38.905134Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"TxyikPbOSN6ZQ82DI/k3FQ+oz4xaR8BB+pIVdVOVhQP/8PgJiEHV/cer8g1kTZjs3eizUlL0+wyuMAn6X2ZyBA==","signature_status":"signed_v1","signed_at":"2026-07-05T11:13:38.905649Z","signed_message":"canonical_sha256_bytes"},"source_id":"2506.00692","source_kind":"arxiv","source_version":1}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:c60dd2235dffcdd5db008ff5552199ba53bb772d485d2d4d873cc0422d6d08d6","sha256:e793760db437975bcf550082983922400747a954e30792fa87c423ccadd50574"],"state_sha256":"35218278e30a99f1698d7d810996e9bea9ed708081004d81fe1f171779bc976e"},"bundle_signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"nDE3/ZwWroKtY36YFAYqqjGUpszGWmg45GzY6Zz+0u13+lexZHhgwqTuDVh/LgIT3MgGcu3xscpTccWa/KdoCw==","signed_message":"bundle_sha256_bytes","signed_at":"2026-08-09T06:58:38.132831Z","bundle_sha256":"395a7c220717007007c5336ba22ff67b2f4defa5121c164f3a13b04916259e05"}}