Genome-wide identification of PbrbHLH family genes, and expression analysis in response to drought and cold stresses in pear (Pyrus bretschneideri)

Dong, Huizhen; Chen, Qiming; Dai, Yuqin; Hu, Wenjie; Zhang, Shaoling; Huang, Xiaosan

doi:10.1186/s12870-021-02862-5

Table 3 The duplicate mode and estimation of absolute date for large-scale duplication events for PbrbHLHs

From: Genome-wide identification of PbrbHLH family genes, and expression analysis in response to drought and cold stresses in pear (Pyrus bretschneideri)

Colinearity gene pairs		Duplication type		Method	Ka	Ks	Ka/Ks	MYA	P-Value (Fisher)
Gene1	Gene2	Gene1	Gene2	Method	Ka	Ks	Ka/Ks	MYA	P-Value (Fisher)
PbrbHLH6	PbrbHLH14	WGD	WGD	NG	0.14	0.29	0.47	97.86	0.000549
PbrbHLH10	PbrbHLH135	WGD	WGD	NG	0.04	0.13	0.30	44.85	6.55E-08
PbrbHLH20	PbrbHLH103	WGD	WGD	NG	0.08	0.21	0.38	70.19	1.28E-06
PbrbHLH21	PbrbHLH22	WGD	WGD	NG	NA	NA	NA	NA	NA
PbrbHLH24	PbrbHLH28	WGD	WGD	NG	0.06	0.16	0.39	53.45	1.34E-08
PbrbHLH25	PbrbHLH145	WGD	WGD	NG	NA	0.01	0.00	2.39	NA
PbrbHLH29	PbrbHLH72	WGD	WGD	NG	0.59	2.37	0.25	790.30	9.99E-18
PbrbHLH29	PbrbHLH88	WGD	WGD	NG	0.06	0.22	0.28	73.35	5.03E-14
PbrbHLH30	PbrbHLH138	WGD	WGD	NG	0.07	0.16	0.46	53.44	0.0025151
PbrbHLH38	PbrbHLH112	WGD	proximal	NG	0.08	0.25	0.31	82.40	6.76E-11
PbrbHLH40	PbrbHLH15	WGD	WGD	NG	0.25	1.73	0.15	577.13	1.60E-33
PbrbHLH40	PbrbHLH111	WGD	WGD	NG	0.03	0.20	0.13	67.82	1.39E-13
PbrbHLH42	PbrbHLH48	WGD	WGD	NG	0.09	0.24	0.35	80.89	4.09E-06
PbrbHLH44	PbrbHLH46	WGD	WGD	NG	0.03	0.16	0.18	53.81	2.18E-15
PbrbHLH49	PbrbHLH114	WGD	WGD	NG	0.07	0.16	0.41	54.11	2.60E-08
PbrbHLH53	PbrbHLH186	WGD	WGD	NG	0.01	0.01	0.59	3.39	0.416491
PbrbHLH61	PbrbHLH47	WGD	WGD	NG	0.09	0.17	0.50	57.55	0.000638
PbrbHLH61	PbrbHLH142	WGD	WGD	NG	0.09	0.17	0.52	57.55	0.0010697
PbrbHLH68	PbrbHLH130	WGD	WGD	NG	0.03	0.11	0.30	37.23	3.36E-05
PbrbHLH69	PbrbHLH190	WGD	WGD	NG	0.07	0.15	0.47	49.46	3.18E-05
PbrbHLH70	PbrbHLH4	WGD	WGD	NG	0.06	0.20	0.30	66.52	2.02E-06
PbrbHLH71	PbrbHLH63	WGD	WGD	NG	0.01	0.04	0.38	13.25	0.0088433
PbrbHLH72	PbrbHLH94	WGD	WGD	NG	0.20	0.40	0.50	131.94	8.95E-06
PbrbHLH73	PbrbHLH76	WGD	proximal	NG	NA	NA	NA	NA	NA
PbrbHLH74	PbrbHLH75	proximal	WGD	NG	NA	NA	NA	NA	NA
PbrbHLH74	PbrbHLH179	proximal	WGD	NG	0.05	0.32	0.17	105.65	2.57E-15
PbrbHLH75	PbrbHLH179	WGD	WGD	NG	0.05	0.32	0.17	105.65	2.57E-15
PbrbHLH81	PbrbHLH47	WGD	WGD	NG	0.09	0.18	0.49	60.41	0.000206
PbrbHLH81	PbrbHLH61	WGD	WGD	NG	0.00	0.01	0.24	4.66	0.0623594
PbrbHLH81	PbrbHLH142	WGD	WGD	NG	0.09	0.18	0.50	60.41	0.0003516
PbrbHLH83	PbrbHLH151	WGD	WGD	NG	0.33	2.81	0.12	938.19	4.15E-23
PbrbHLH86	PbrbHLH93	WGD	WGD	NG	0.05	0.11	0.50	35.10	0.007392
PbrbHLH90	PbrbHLH123	WGD	WGD	NG	0.03	0.13	0.21	43.84	7.79E-10
PbrbHLH91	PbrbHLH194	WGD	WGD	NG	0.19	0.37	0.51	123.02	0.0001704
PbrbHLH97	PbrbHLH98	tandem	tandem	NG	NA	NA	NA	NA	NA
PbrbHLH100	PbrbHLH5	WGD	WGD	NG	0.05	0.17	0.28	56.22	1.41E-08
PbrbHLH104	PbrbHLH45	WGD	WGD	NG	0.07	0.10	0.70	32.29	0.185088
PbrbHLH104	PbrbHLH122	WGD	WGD	NG	0.00	NA	NA	NA	NA
PbrbHLH110	PbrbHLH152	WGD	WGD	NG	0.01	0.01	1.78	2.63	0.722276
PbrbHLH115	PbrbHLH24	WGD	WGD	NG	NA	0.00	0.00	1.38	NA
PbrbHLH115	PbrbHLH28	WGD	WGD	NG	0.06	0.16	0.39	53.45	1.34E-08
PbrbHLH121	PbrbHLH46	WGD	WGD	NG	0.03	0.16	0.18	53.81	2.18E-15
PbrbHLH122	PbrbHLH45	WGD	WGD	NG	0.07	0.10	0.69	32.39	0.140337
PbrbHLH129	PbrbHLH58	WGD	WGD	NG	0.03	0.22	0.11	74.60	6.27E-17
PbrbHLH132	PbrbHLH82	WGD	WGD	NG	0.10	0.23	0.43	75.83	0.0033683
PbrbHLH133	PbrbHLH37	WGD	WGD	NG	0.07	0.17	0.39	57.16	2.79E-06
PbrbHLH134	PbrbHLH59	WGD	WGD	NG	0.08	0.19	0.45	61.87	0.0024985
PbrbHLH134	PbrbHLH170	WGD	WGD	NG	0.44	1.98	0.22	661.66	2.55E-15
PbrbHLH136	PbrbHLH29	WGD	WGD	NG	0.36	1.49	0.24	497.24	6.84E-23
PbrbHLH136	PbrbHLH72	WGD	WGD	NG	0.52	1.81	0.29	603.96	1.79E-15
PbrbHLH142	PbrbHLH47	WGD	WGD	NG	0.00	0.01	0.16	4.40	0.0337635
PbrbHLH143	PbrbHLH131	WGD	WGD	NG	0.07	0.14	0.49	47.75	0.0087228
PbrbHLH146	PbrbHLH31	WGD	WGD	NG	0.04	0.22	0.18	73.41	5.22E-17
PbrbHLH151	PbrbHLH109	WGD	WGD	NG	0.05	0.15	0.32	48.85	0.0001836
PbrbHLH151	PbrbHLH174	WGD	WGD	NG	0.00	0.02	0.07	8.22	0.0100508
PbrbHLH153	PbrbHLH54	WGD	WGD	NG	0.16	0.21	0.73	71.01	0.0116334
PbrbHLH155	PbrbHLH150	WGD	WGD	NG	0.24	0.75	0.32	249.03	9.36E-21
PbrbHLH157	PbrbHLH149	WGD	WGD	NG	0.06	0.17	0.37	55.19	5.61E-10
PbrbHLH170	PbrbHLH89	WGD	WGD	NG	0.06	0.20	0.30	66.11	4.02E-06
PbrbHLH171	PbrbHLH53	WGD	WGD	NG	0.32	1.62	0.20	541.67	9.61E-24
PbrbHLH174	PbrbHLH109	WGD	WGD	NG	0.04	0.13	0.34	43.89	0.0005669
PbrbHLH177	PbrbHLH26	WGD	WGD	NG	0.34	2.62	0.13	874.92	4.32E-31
PbrbHLH178	PbrbHLH147	WGD	WGD	NG	0.01	0.00	1.40	1.42	0.772501
PbrbHLH196	PbrbHLH168	WGD	WGD	NG	0.06	0.10	0.59	31.88	0.0536712
PbrbHLH197	PbrbHLH169	WGD	WGD	NG	0.01	0.02	0.37	7.33	0.0941955

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