This article is available online at http://www.jlr.org are important for the effi ciency of the RCT pathway and the inverse relationship with the incidence of atherosclerosis. Plasma HDL comprises a heterogeneous assembly of different size particles, with variations in lipid and protein content ( 6, 7 ). Apolipoprotein (apo)A-I and apoA-II are the major protein constituents, comprising 70% and 20% of total HDL protein, respectively ( 8 ). ApoA-I has received the most attention to this point, and its structure-function relationship in preventing atherosclerosis is relatively well understood ( 7 ). In comparison, less attention has been paid to apoA-II. Human apoA-II is an amphipathic protein synthesized and secreted by the liver and small intestine as an 82-amino acid proprotein that is proteolytically cleaved to the mature 77-amino acid protein ( 9 ). The concentration of apoA-II in plasma is 31 ± 6 mg/dl, much lower than the apoA-I level (123 ± 28 mg/dl) ( 10 ). ApoA-II circulates as a 17.4 kDa homodimer formed by two mature apoA-II molecules linked by a disulphide bond at residue 6 ( 11 ).HDL heterogeneity originates at the point of biogenesis at which apoA-I and ABCA1 interact to create discoidal nascent particles; the relative available lipid/apoA-I ratio controls the size distribution ( 12 ). The heterogeneity of mature spherical HDL is also affected by remodeling by lipases and lipid transfer proteins in the plasma ( 6 ). It is important to understand HDL heterogeneity because different HDL subspecies exhibit different functionalities ( 13 ). The existence of LpA-I and LpA-I+A-II particles is another aspect of HDL heterogeneity that infl uences HDL functionality. For instance, LpA-I+A-II HDL is less effective than LpA-I HDL at promoting selective cholesteryl ester uptake via SR-B1 ( 14 ) and the transfer of cholesteryl ester by CETP ( 15 ). Also, compared with LpA-I particles, LpA-I+A-II particles are less effective at promoting cholesterol esterifi cation via LCAT ( 16 ), although the abilities of the two types of HDL to promote cellular cholesterol effl ux are similar ( 17,18 ).To better understand the origins of nascent HDL heterogeneity arising from the coexistence of LpA-I and LpA-I+A-II particles, we examined the particles formed when High density lipoprotein (HDL) cholesterol levels in plasma are inversely associated with the risk of cardiovascular disease ( 1 ). This antiatherogenic behavior is thought to arise in part from the central role of HDL in reverse cholesterol transport (RCT), the pathway by which excess cholesterol is removed from peripheral tissues and transported to the liver for excretion from the body ( 2-5 ). The current consensus is that the structure and composition of HDL particles, not just the plasma HDL cholesterol levels,