Background: Familial clustering of schizophrenia (SCZ), bipolar disorder (BPD), and major depressive disorder (MDD) was systematically investigated (Aukes et al, Genet Med 2012, 14, 338-341), and any two or even three of these disorder could co-existe in some families. Moreover, convergent evidence from symptomatology and psychopharmacology also imply intrinsic connections between these three major disorders. Methods: A total of 41,521 SNPs on chromosome 9 were genotyped by Affymetrix Genome-Wide Human SNP array 6.0 on 119 SCZ, 253 BPD(type-1), 177 MDD patients, and 1000 controls. Results: Associated SNPs and outstanding susceptibility genes ( APBA1, DBC1, FREM1, GABBR2, GRIN3A, PTPRD and TLE1) were systematically screen out. Unexpectedly, all flanking genes of the associated SNPs distinctive for bipolar and/or major depressive disorder were replicated in an enlarged cohort of 986 SCZ patients. Conclusions:: Our chromosome 9 result implies that bipolar disorder, and major depressive disorder might be subtypes of schizophrenia rather than independence disease entity. Furthermore, evidence was constantly emerged from other chromosomes such as chr3, chr4, chr5, chr6, chr7 and chr8 (J Comp Neurol 2018; 526(1):59-79; J Comp Neurol 2019;527(2): 392-405. Am J Transl Res 2017; 9(5):2473-91; Curr Mol Med 2016; 16(9):840-54; Behav Brain Res 2015; 293:241-51; Mol Neurobiol 2017; 54(8):5868-82). Funding Statement: This study supported by grants from the Shandong Medical and Health Science and Technology Development project (Grant No. 2015WS0256), Key research and development Program of Shandong Province (Grant No. 2016GSF201076 ), Natural Science Foundation of Shandong Province (Grant No. ZR2013HM078, Z2008C11, Z2004C10), Shandong Province Science and Technology Development Plan (Grant No. 2011GSF11821), National High-tech R&D Program of China (863 Program Grant No. 2002AA223021), The National Natural Science Foundation of China (Grant No. 30770780, 30440042), Ministry of Human Resources and Social Security of China (Grant No. 2009.416), Department of Science & Technology of Shandong Province (Grant No. 2008GG27C01011-8), National Bureau of Foreign Experts Affairs (Grant No.CG2006370002), Shandong Bureau of Foreign Experts Affairs (Grant No. L20063700407), Shandong Academy of Medical Sciences (Grant No. 2012-25, 2009-15), The Innovation Project of Shandong Academy of Medical Sciences. Declaration of Interests: The author(s) declare that they have no conflicts of interest. Ethics Approval Statement: Written consent was obtained from all subjects, and this study was approved by the Ethics Committee of the Institute of Basic Medicine of Shandong Academy of Medical Sciences.