Lectin-Seq profiling of fecal microbiota lectin binding
Cross-sectional study of 84 fecal microbiota samples (collection location not recorded) profiling binding interactomes of human lectins MBL and intelectin-1 using the Lectin-Seq method. machine-written summary
84 samples · 84 runs · US · Age unknown · 2023 · 0.78 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 84 sample values (subject id) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 84 sample values (country) · PMC10381928 |
| ✓ Supplementary tables | 168 sample values (health condition, health condition detail) |
| – External resources | not covered by the external resources we ingest |
| – User contribution | nothing uploaded yet |
| – Human verified | not yet checked by a person · I checked this project — verify it |
longitudinal — not resolved
14 of 14 people sampled more than once (84 samples; median 6, up to 6 per person).
Genera, mean relative abundance over 75 profiled gut samples of this project (Sandpiper SingleM profiles, GTDB R232; low-depth and non-metagenome profiles left out).
| field | samples | coverage | R1 | R2 | R3 | R4 |
|---|---|---|---|---|---|---|
| age_category | 0 | 0% | ||||
| country | 84 | 100% | 84 | |||
| health_condition | 84 | 100% | 84 | |||
| subject_id | 84 | 100% | 84 | |||
| health_condition_detail | 84 | 100% | 84 |
- Lectin-Seq: A method to profile lectin-microbe interactions in native communities. 2023 PMID 37506208 PMC10381928 own_data
Archive description
Soluble human lectins are critical components of innate immunity. Genetic models suggest lectins influence host-resident microbiota, but their specificity for commensal and mutualist species is understudied. Elucidating lectins roles in regulating microbiota requires an understanding of which microbial species they bind within native communities. To profile human lectin recognition, we developed Lectin-Seq. We apply Lectin-Seq to human fecal microbiota using the soluble mannose-binding lectin and intelectin-1. The microbial interactomes of MBL and hItln1 differ in composition and diversity. MBL binding is highly selective for a small subset of species commonly associated with humans. In contrast, hItln1s interaction profile encompasses a broad range of lower-abundance species. Our data uncover stark differences in the commensal recognition properties of human lectins.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.57. Assay shotgun_dna.
- host study.description · “human fecal microbiota using the soluble mannose-binding lectin”
- body site study.description · “human fecal microbiota”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN32114683 | country | US | R3 | 0.70 | paper.fulltext.methods | Massachusetts Institute of Technology [Institutional Review Board |
| SAMN32114683 | health_condition | ulcerative_colitis | R2 | 0.75 | paper.supp.sciadv.add8766_tables_s1_to_s8.zip/TableS5_LLK_112722.xlsx[Sheet1!Health] | D05 UC |
| SAMN32114683 | health_condition_detail | UC | R2 | 0.75 | paper.supp.sciadv.add8766_tables_s1_to_s8.zip/TableS5_LLK_112722.xlsx[Sheet1!Health] | D05 UC |
| SAMN32114683 | subject_id | D05 | R1 | 0.85 | biosample.attribute:source_material_id | D05 |
Sequencing
84 runs over 84 samples · mean 0.78 Gbp per run (median 0.78 Gbp, total 65.19 Gbp; 84 runs with a base count) · layout SINGLE 84 · platform ILLUMINA 84 · models Illumina HiSeq 2500 (84) · 89% of runs with a Sandpiper profile · first public 2023-08-27
Authors (22)
McPherson RL first · Isabella CR · Walker RL · Sergio D · Bae S · Gaca T · Raman S · Nguyen LTT · Wesener DA · Halim M · Wuo MG · Dugan A · Kerby R · Ghosh S · Rey FE · Dhennezel C · Pishchany G · Lensch V · Vlamakis H · Alm EJ · Xavier RJ · Kiessling LL last
Downloads
PRJNA905698.csv.gz (2.6 KB) · parquet (72.0 KB) — all 84 samples, every field with route and confidence · PRJNA905698_determinations.csv.gz (2.5 KB) — 336 evidence rows