HOMD ::Species:Neisseria sicca

Species: Neisseria sicca (HMT-0764) Primary Body Site: Oral

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Full Lineage: Bacteria; Pseudomonadota; Betaproteobacteria; Neisseriales; Neisseriaceae; Neisseria; Neisseria sicca

LINKS: Ecology Home | HMT-0764: [Body Sites Data] [Taxon Description] | Life Page: Neisseria sicca

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Oral:

SUBP-- Subgingival Plaque

SUPP -- Supragingival Plaque

PERIO -- Periodontal

AKE -- Attached Keratinized Gingiva

BMU -- Buccal Mucosa

HPA -- Hard Palate

SAL -- Saliva

THR -- Throat

PTO -- Palatine Tonsils

TDO -- Tongue Dorsum

Nasal:

ANA -- Anterior Nares

Skin:

LRC -- L_Retroauricular Crease

RRC -- R_Retroauricular Crease

LAF -- L_Antecubital Fossa

RAF -- R_Antecubital Fossa

Vaginal:

VIN -- Vaginal Introitus

MVA -- Mid Vagina

PFO -- Posterior Fornix

Gut:

STO -- Stool

Prev - Prevalence
10^thp - 10^th percentile
90^thp - 90^th percentile
ND - less than 0.001%

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Available Datasets:
HMP Mapping Eren V1-V3 Eren V3-V5 HMP V1-V3 ND:HMPv3v5 HMP Metaphlan Dewhirst 35x9

No Available Datasets for Species: Neisseria sicca

Human Microbiome Project Mapping (Data from healthy subjects. - not published)

No Notes

	SUBP	SUPP	PERIO	AKE	BMU	HPA	SAL	THR	PTO	TDO	ANA	LRC	RRC	RAF	VIN	MVA	PFO	STO
Avg (%)	0.78	1.01	0.11	0.17	0.44	0.10	0.40	0.07	0.08	0.07	0.02	0.03	0.04	0.36	0	0.03	0.01	0
n	24	395	24	15	323	1	8	7	22	423	65	23	30	1	4	8	94	375
10^thp	0.03	0.04	0	0	0.01	0.10	0.10	0	0	0.01	0	0	0	0.36	0	0	0	0
90^thp	1.87	2.50	0.20	0.51	1.18	0.10	0.72	0.14	0.20	0.17	0.07	0.05	0.02	0.36	0	0.07	0.01	0
Stdev	0.87	1.61	0.36	0.32	0.79	0	0.30	0.07	0.12	0.09	0.04	0.08	0.17	0	0	0.08	0.07	0.07
Prev(%)	66.67	82.78	8.33	26.67	44.89	100.00	50.00	14.29	4.55	25.53	1.54	0	3.33	0	0	12.50	1.06	0.27

Eren V1-V3 www.pnas.org (Data from healthy subjects.)

Notes:
reads equally close to N. flava, N. macacae, N. mucosa, and N. sicca were assigned one fourth to each taxon

	SUBP	SUPP	AKE	BMU	HPA	SAL	THR	PTO	TDO	STO
Avg (%)	0.61	0.79	0.12	0.29	0.14	0.20	0.04	0.03	0.01	0
n	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN
10^thp	0	0	0	0	0	0	0	0	0	0
90^thp	1.70	2.06	0.20	0.78	0.22	0.35	0.11	0.05	0.03	0
Stdev	1.21	1.31	0.36	0.79	0.51	0.42	0.11	0.12	0.02	0
Prev(%)	80.52	83.12	54.55	79.22	72.73	72.73	48.05	46.75	40.26	3.90

Eren V3-V5 www.pnas.org (Data from healthy subjects.)

Notes:
Reads equally close to N. flava, N. macacae, N. mucosa, and N. sicca were assigned one-fourth to each taxon.

	SUBP	SUPP	AKE	BMU	HPA	SAL	THR	PTO	TDO	STO
Avg (%)	0.63	1.08	0.12	0.38	0.20	0.42	0.07	0.09	0.03	0
n	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN
10^thp	0	0.01	0	0	0	0	0	0	0	0
90^thp	1.38	3.06	0.19	1.15	0.40	1.06	0.19	0.12	0.07	0
Stdev	1.15	1.51	0.33	0.79	0.56	0.58	0.14	0.31	0.05	0
Prev(%)	85.81	93.24	57.43	86.49	81.76	87.16	65.54	66.89	58.78	0

Human Microbiome Project 16S RefSeq (V1-V3) (Data from healthy subjects. - not published)

Notes:
Because HMT-682 is not present individually, all equidistant reads were assigned to HMT-764 at this body site (ANA).

Because HMT-609 is not present individually, all equidistant reads were assigned to HMT-764 at these sites (BMU,PTO,SAL).

Some of the reads equidistant from these taxa (099-682-764) are included in HMT-764 because they are too close to differentiate at these sites (AKE,ANA,RRC,SAL,SUBP).

Reads equidistant to HMT-682 and HMT-764 were assigned to each taxon in proportion to the abundance of HMT-682 and HMT-764 individually at these sites (AKE,HPA,LAF,RAF,SUBP,SUPP,THR).

	SUBP	SUPP	AKE	BMU	HPA	SAL	THR	PTO	TDO	ANA	LRC	RRC	LAF	RAF	VIN	MVA	PFO	STO
Avg (%)	1.69	2.60	0.40	0.66	0.50	0.71	0.09	0.12	0.03	0.06	0.09	0.06	0.09	0.13	0	0	0	0
n	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN
10^thp	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
90^thp	4.55	7.81	0.85	2.31	0.93	1.99	0.19	0.16	0.07	0.20	0.05	0.04	0.15	0.20	0	0	0	0
Stdev	4.11	5.07	1.21	1.62	1.79	1.66	0.32	0.64	0.07	0.15	0.98	0.47	0.41	0.59	0	0	0	0
Prev(%)	78.15	88.74	55.94	68.49	66.44	65.39	45.83	50.67	45.81	37.00	25.00	19.55	22.99	24.89	0	0	0	0

Human Microbiome Project 16S RefSeq (V3-V5) (Data from healthy subjects. - not published)

Notes:
No data – the v3v5 region of the 16S rRNA gene does not distinguish this species from its close relatives.

Dewhirst 35x9 (35 Taxa by 9 Oral Sites. - not published)

Notes:
Reads equally close to HMT 099, 609, 682, and 764 were assigned one fourth to each taxon.

	SUBP	SUPP	AKE	BMU	HPA	SAL	THR	PTO	TDO	ANA
Avg (%)	0.10	0.06	0.01	0.06	0.15	0.05	0.01	0.01	0	0
n	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN
10^thp	0	0	0	0	0	0	0	0	0	0
90^thp	0.07	0.15	0.04	0.16	0.40	0.09	0.01	0.03	0.01	0
Stdev	0.39	0.17	0.02	0.11	0.40	0.17	0.01	0.04	0.01	0
Prev(%)	60.81	64.71	48.84	74.29	75.00	66.00	63.64	58.06	50.00	0

Human Microbiome Project Metaphlan (Data from healthy subjects. - not published)

No Notes

	SUBP	SUPP	PERIO	AKE	BMU	HPA	SAL	THR	PTO	TDO	ANA	LRC	RRC	RAF	VIN	MVA	PFO	STO
Avg (%)	1.59	2.57	0.52	0.17	1.22	0.68	0.59	0.02	0.15	0.04	0.01	0.03	0.04	0.12	0	0.01	0.01	0
n	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN	NaN
10^thp	0	0	0	0	0	0.68	0	0	0	0	0	0	0	0.12	0	0	0	0
90^thp	3.22	6.50	0.14	0.40	3.39	0.68	1.16	0.05	0.09	0.09	0	0.02	0.01	0.12	0	0	0	0
Stdev	2.17	4.36	2.39	0.39	2.59	0	0.58	0.07	0.62	0.13	0.08	0.11	0.17	0	0	0.05	0.11	0.05
Prev(%)	79.17	89.39	29.17	35.29	77.93	100.00	75.00	25.00	48.00	47.89	7.66	20.83	15.63	100.00	0	7.14	2.02	0.55

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