Baryon Acoustic Oscillation (BAO) surveys will be a leading method for addressing the dark energy challenge in the next decade. We explore in detail the effect of allowing for small amplitude admixtures of general isocurvature perturbations in addition to the dominant adiabatic mode. We find that non-adiabatic initial conditions leave the sound speed unchanged but instead excite different harmonics. These harmonics couple differently to Silk damping, altering the form and evolution of acoustic waves in the baryon-photon fluid prior to decoupling. This modifies not only the scale on which the sound waves imprint onto the baryon distribution, which is used as the standard ruler in BAO surveys, but also the shape, width and height of the BAO peak. We discuss these effects in detail and show how more general initial conditions impact our interpretation of cosmological data in dark energy studies. We find that the inclusion of these additional isocurvature modes leads to an increase in the Dark Energy Task Force Figure of merit by 140% and 60% for the BOSS and ADEPT experiments respectively when considered in conjunction with Planck data. We also show that the incorrect assumption of adiabaticity has the potential to bias our estimates of the dark energy parameters by $3sigma$ ($1sigma$) for a single correlated isocurvature mode, and up to $8sigma$ ($3sigma$) for three correlated isocurvature modes in the case of the BOSS (ADEPT) experiment. We find that the use of the large scale structure data in conjunction with CMB data improves our ability to measure the contributions of different modes to the initial conditions by as much as 100% for certain modes in the fully correlated case.
Small fractions of isocurvature perturbations correlated with the dominant adiabatic mode are shown to be a significant primordial systematic for future Baryon Acoustic Oscillation (BAO) surveys, distorting the standard ruler distance by broadening and shifting the peak in the galaxy correlation function. Untreated this systematic leads to biases that can exceed $10sigma$ in the dark energy parameters even for Planck-level isocurvature constraints. Accounting for the isocurvature modes corrects for this bias but degrades the dark energy figure of merit by at least 50%. The BAO data in turn provides extremely powerful new constraints on the nature of the primordial perturbations. Future large galaxy surveys will thus be powerful probes of the earliest phase of the universe in addition to helping pin down the nature of dark energy.
It has been suggested that Einsteins theory of General Relativity can be modified to accomodate mismatches between the gravitational field and luminous matter on a wide range of scales. Covariant theories of modified gravity generically predict the existence of extra degrees of freedom which may be interpreted as dark matter. We study a subclass of these theories where the overall energy density in these extra degrees of freedom is subdominant relative to the baryon density and show that they favour the presence of massive neutrinos. For some specific cases (such as a flat Universes with a cosmological constant) one finds a conservative lower bound on the neutrinos mass of $m_ u>0.31$ eV.
