A, Cross-sections through T1 (upper) and T2 (lower) atlas images. B, Examples of automatic segmentation. Upper row: 5-day-old male neonate (brain volume, 3.1 × 105 mm3; 30% of elderly adult brain volume); lower row, 117-day-old male infant with a brain more than twice as large (brain volume, 6.6 × 105 mm3; 65% of adult brain volume). Color key: yellow, hippocampus; pink, putamen; light blue, caudate; medium blue, pallidum; light green, thalamus; purple, ventricles; dark green, cerebellum; gray, brain stem; brown, rest of whole-brain parenchyma.
A, Spaghetti plot showing whole-brain volume for 39 male and 48 female infants (94 and 117 time points, respectively) during the first 3 months of postnatal life, along with generalized additive mixed model (GAMM) fits to the data (dark lines, from the Equation), and 95% CIs (shaded regions); see also eFigure 2 in the Supplement. B, Daily growth rate for the whole brain during the first 3 months of postnatal life (for male and female infants combined). The dashed line is the gradient of a GAMM fit for whole-brain volume trajectory; the solid line is a GAMM fit to centered linear estimates of the growth rates (between each subject’s neighboring data points) from the longitudinal data only. Whole-brain volume-by age percentile plots for boys (C) and girls (D) (see also eFigure 3B and 3D in the Supplement); these plots can be used when controlling for an infant’s head circumference and gestational age at birth.
eTable 1. Comparison of Automatic and Manual Segmentation.
eTable 2. Whole-Brain Growth Trajectories: Model Results.
eTable 3. Whole-Brain Growth Trajectories: Model Results.
eFigure 1. Comparison of Manual and Automatic Segmentation.
eFigure 2. Whole-Brain Growth Trajectories, Including Controlling for Head Circumference at Birth.
eFigure 3. Volume-for-Age Percentile Plots, and Residualized Volume-for-Age Percentile Plots.
eFigure 4. Growth Trajectories and Rates of Change for Caudate, Cerebellum, Putamen, and Lateral Ventricles.
eFigure 5. Growth Trajectories and Rates of Change for Amygdala, Hippocampus, Thalamus, and Brain Stem.
eFigure 6. Volume-by age Percentile Plots for Caudate, Cerebellum, Putamen, and Lateral Ventricles.
eFigure 7. Spaghetti Plot of Volume Difference Between Left and Right Lateral Ventricles.
eFigure 8. Spaghetti Plots of Volume Difference Between Left and Right ROIs, for Amygdala, Hippocampus, Caudate, Thalamus, Putamen, and Cerebellum.
Holland D, Chang L, Ernst TM, Curran M, Buchthal SD, Alicata D, Skranes J, Johansen H, Hernandez A, Yamakawa R, Kuperman JM, Dale AM. Structural Growth Trajectories and Rates of Change in the First 3 Months of Infant Brain Development. JAMA Neurol. 2014;71(10):1266-1274. doi:10.1001/jamaneurol.2014.1638
Copyright 2014 American Medical Association. All Rights Reserved. Applicable FARS/DFARS Restrictions Apply to Government Use.
The very early postnatal period witnesses extraordinary rates of growth, but structural brain development in this period has largely not been explored longitudinally. Such assessment may be key in detecting and treating the earliest signs of neurodevelopmental disorders.
To assess structural growth trajectories and rates of change in the whole brain and regions of interest in infants during the first 3 months after birth.
Design, Setting, and Participants
Serial structural T1-weighted and/or T2-weighted magnetic resonance images were obtained for 211 time points from 87 healthy term-born or term-equivalent preterm-born infants, aged 2 to 90 days, between October 5, 2007, and June 12, 2013.
Main Outcomes and Measures
We segmented whole-brain and multiple subcortical regions of interest using a novel application of Bayesian-based methods. We modeled growth and rate of growth trajectories nonparametrically and assessed left-right asymmetries and sexual dimorphisms.
Whole-brain volume at birth was approximately one-third of healthy elderly brain volume, and did not differ significantly between male and female infants (347 388 mm3 and 335 509 mm3, respectively, P = .12). The growth rate was approximately 1%/d, slowing to 0.4%/d by the end of the first 3 months, when the brain reached just more than half of elderly adult brain volume. Overall growth in the first 90 days was 64%. There was a significant age-by-sex effect leading to widening separation in brain sizes with age between male and female infants (with male infants growing faster than females by 200.4 mm3/d, SE = 67.2, P = .003). Longer gestation was associated with larger brain size (2215 mm3/d, SE = 284, P = 4×10−13). The expected brain size of an infant born one week earlier than average was 5% smaller than average; at 90 days it will not have caught up, being 2% smaller than average. The cerebellum grew at the highest rate, more than doubling in 90 days, and the hippocampus grew at the slowest rate, increasing by 47% in 90 days. There was left-right asymmetry in multiple regions of interest, particularly the lateral ventricles where the left was larger than the right by 462 mm3 on average (approximately 5% of lateral ventricular volume at 2 months). We calculated volume-by-age percentile plots for assessing individual development.
Conclusions and Relevance
Normative trajectories for early postnatal brain structural development can be determined from magnetic resonance imaging and could be used to improve the detection of deviant maturational patterns indicative of neurodevelopmental disorders.
There is a lack of quantitative in vivo studies of early postnatal brain development, particularly longitudinal studies, in healthy term infants. Most published studies are cross-sectional and focus on the effects in infants of being born preterm.1- 4 There remains therefore a serious gap in our knowledge of the normally maturing brain,5 because the earliest periods of postnatal development are the most dynamic6 and may have pronounced bearing on neurodevelopmental disorders, particularly those eventually manifesting as childhood-onset neuropsychiatric disorders (eIntroduction in the Supplement). Thus, it is important to understand and quantify normal developmental trajectories from which to assess, as early and precisely as possible, deviant maturation patterns indicative of such disorders. In addition, trajectories for subregional brain growth would provide a foundation to correlate the very rapid brain development with concomitant development of cognitive and motor abilities.
The standard clinical approach to assessing structural development of the brain in neonates, measurement of head circumference with a tape, dates back more than 200 years.7- 10 In cases of suspected abnormalities, computed tomography11 has been used to visualize the brain in vivo, but it uses ionizing x-rays.12 Magnetic resonance (MR) imaging (MRI) does not involve harmful radiation, and it provides a rich set of contrasts for visualizing different types of tissue.13 In particular, T1-weighted and T2-weighted imaging allows quantitative assessment of brain structure and can be performed repeatedly for longitudinal evaluations without deleterious effects.
Reasons for the scarcity of MRI developmental studies to date include the practical difficulties in enrolling and imaging infants in the days and weeks immediately after birth, and difficulties in image postprocessing and analysis.13 In addition to the usual issues that affect precision in quantitative image analysis in adults, such as geometric distortion due to nonlinearity in the main magnetic field of the scanner and nonuniform intensity due to spatial variability in penetration and strength of the radiofrequency excitation pulse, there are other difficulties in analyzing neonatal images, which are typically more pronounced. These include image degradation due to subject motion, often to the point that images are unusable; dramatic changes in head size during the first months of life; very different head shapes arising from natural birth and cesarean delivery; rapid changes in tissue contrast caused by differential myelination across brain regions, decreases in water content,14 and increases in tissue density, such that on T1-weighted images gray matter, initially brighter than white matter, becomes darker than white matter; low contrast-to-noise ratio between gray and white matter; and resolution difficulties arising from the fact that essentially the full adult folding complexity15,16 is contained in a third of the adult intracranial volume. As a result of these challenges, direct, automatic, and independent subcortical tissue segmentation of individual neonatal brain images has often proved difficult,6,17,18 despite recent advances in delineation of myelinated/unmyelinated tissue segmentation in images of infants.19- 21
In this study, we used a novel application of Bayesian-based methods, described below, to automatically segment neonatal brain structures based on T1-weighted and T2-weighted structural MRI. We present results from what is to our knowledge the largest longitudinal study to date (211 time points from 87 subjects) of cerebral structural development focusing on the first 3 months of postnatal life in healthy term-born or term-equivalent preterm-born infants. We examined multiple regions of interest (ROIs), including lateral ventricles, hippocampus, caudate, and putamen; assessed sexual dimorphisms, left-right asymmetries, and growth rates as a function of age; and calculated sex-specific volume-by-age percentile plots for the brain parenchyma and several subcortical brain regions.
A total of 572 parents were screened initially by telephone or at the local hospital and clinics; 180 parents or legal guardians signed a written informed consent, and the study was approved by the institutional review board at the University of Hawaii. After detailed interviews with the parents or legal guardians regarding the mothers’ medical and drug use histories, 87 healthy neonates (39 male and 48 female) fulfilling study criteria were enrolled for the current MRI study (Table 1). Images were obtained between October 5, 2007, and June 12, 2013. The majority of infants were mixed race (54%), and the rest were white (non-Hispanic, 8%), Native Hawaiian/Pacific Islander (22%), Asian (13%), or black (1%). See the eMethods in the Supplement for further details.
T1-weighted and T2-weighted MR images were acquired with 3-dimensional pulse sequences on a Siemens TrioTim 3.0-T scanner (Siemens Medical Systems) while the infant slept without sedation (eMethods in the Supplement).
To perform automatic segmentation on an anatomical image, probabilistic information—spatial prior probabilities for ROIs and likelihoods of intensities given a tissue type—must first be gathered using manually segmented images, a process that is facilitated by mapping the images to an atlas space. Image alignment, nonlinear registration, and correction of intensity nonuniformity were performed using a modified version of Quarc22,23 (quantitative anatomical regional change), a recently developed method from the Multimodal Imaging Laboratory, University of California, San Diego.
For any given pair of aligned T1 and T2 brain images, the inverse mapping of these images to the atlas can be applied to the spatial prior probability distributions, which, along with both T1 and T2 signal intensities, can be used to assign tissue labels to voxels in the original images. In principle, tissue segmentation will be more precise if multiple modalities with different contrast properties are used, especially if tissue image definition depends on both ROI and modality (see eMethods in the Supplement for further details). Estimates for absolute structure volumes (with standard errors of the mean) are shown in eFigure 1A in the Supplement and numerical values are provided in the eResults and eTable 1 in the Supplement. Figure 1A shows coronal, axial, and sagittal sections of the T1 and T2 atlas images, and Figure 1B shows automatic segmentation (coronal, axial, and sagittal sections) in images from 2 male infants that were not manually segmented.
Generalized additive mixed model (GAMM)24 analyses with robust estimation were used to assess growth trajectories from longitudinal measures of structure size. This approach does not enforce a presupposed parametric trajectory (eg, linear or quadratic) but finds a best-fit trajectory (the function f(tij) below), taking into account both the cross-sectional and longitudinal nature of the data. For a given ROI, let Yij denote the structure size (mean of left and right for bilateral structures) for subject i at time point j, and let tij denote the subject’s age (from birth, measured in days) at that time point. Yij is modeled as
Yij = f(tij) + g0Gi + s0Si + gtGitij + stSitij + εij.
Here f(tij) is a GAMM “smooth” functional fit to be determined, and the 2 covariates are the subject’s mean-centered gestational age at birth25Gi (in days) and the subject’s sex Si (male = 0; female = 1). The model parameters to be determined are the coefficients g0 and s0 for the offsets in structure size (intercept) arising from effects due to gestational age at birth and sex, and gt and st for age × (gestational age at birth) and age × sex interactions. The term εij is the within-participant error, assumed to be independent and identically normally distributed with zero mean and variance σε2 (also to be fit by the model). All calculations were carried out in R (version 2.15.0) and MATLAB (version 220.127.116.113; MathWorks) software. In addition, analyses were performed controlling for head circumference or body length at birth in the 63 infants with these data available, by including a term c0Ci for subject i, wherein Ci is the mean-centered measure at birth for subject i and c0 is a cohort coefficient to be determined (eMethods in the Supplement).
Rates of growth for the ROIs were estimated in 2 ways: (1) from the gradient (first derivative with respect to age) of the GAMM-fit curve for the growth trajectory and (2) by taking the strictly longitudinal data, calculating the linear growth rate at the midpoint for each sequential pair of data points for each subject, and then performing a GAMM fit to those estimated growth rate data points.
We calculated residuals for ROI volume for each time point relative to the respective male or female best-fit growth trajectory from the Equation, and we fit the squares of these residuals as a smooth function of age, using GAMM. For male and female infants, the square root of the fit provided the estimate for the standard deviation of the spread in volume around the respective mean as a function of age. We then estimated volumes for various percentiles from the inverse of the corresponding normal cumulative distribution function (eMethods in the Supplement).
Spaghetti plots for male and female whole-brain sizes are shown in Figure 2A, along with GAMM fits to the Equation for the growth trajectories. The estimated intercepts (sizes at birth) are 347 cm3 for male and 335 cm3 for female infants (for the results obtained when controlling for head circumference or body length at birth, see eResults, eFigures 2 and 3, and eTables 2 and 3 in the Supplement). Numerical values for all ROIs are listed in Table 2, with spaghetti plots in eFigures 4 and 5 in the Supplement. As expected, gestational age at birth (g0 coefficients) did have a significant effect on structure size for all ROIs, except the pallidum and third ventricle, with longer gestation leading to larger size at birth. In addition, there was a significant interaction between gestational age at birth and age (gt = −8.334 mm3/d2; SE, 3.202; P = .010), indicating “catching up” among those born earlier than average. By 90 days after birth, male brains had grown more rapidly (66%) than female brains (63%); the highest growth rates were found for the cerebellum: 113% in male and 105% in female infants. Values for other ROIs are in Table 3. Volume-by-age percentile plots are shown in Figure 2C and 2D for whole brain and in eFigure 6 in the Supplement for caudate, cerebellum, putamen, and lateral ventricles. When an infant’s head circumference or body length and/or gestational age at birth is known, the residualized volume-for-age percentile plots (eFigure 3 in the Supplement) can be used, with substantially narrower variance.
Adult whole-brain volume, estimated from the Alzheimer Disease Neuroimaging Initiative data (eMethods in the Supplement) averaged across the sexes, was 1018 cm3 (minimum, 802 cm3; maximum, 1263 cm3; SD, 99 cm3). The estimated mean whole-brain volume in the current study was 341 cm3 at birth and 558 cm3 at 90 days. Therefore, on average, the brains of neonates grew from 33.5% to 54.9% of adult brain size between birth and 90 days.
In the full data set, sex did not affect cerebral structure size at birth (though there was a significant difference between male and female infants in the subset of 63 subjects with controlling for body length or head circumference at birth; eTable 2 in the Supplement). However, there was a significant sex × age effect for the whole brain, ventricles, and putamen, with a trend toward significance for the cerebellum, leading to larger structure sizes with advancing age for male relative to female infants (see st coefficients in Table 2).
We also evaluated left and right volume difference for all bilateral ROIs. Results for the lateral ventricles are shown in eFigure 7 in the Supplement. During the first 3 months of postnatal life, the left ventricle is significantly larger than the right by 462 mm3 (approximately 5% of the size of a lateral ventricle at 2 months; SE, 38 mm3; P < 10−16). Values for all ROIs are shown in Table 3 (eFigure 8 in the Supplement).
An estimate of the rate of growth for the whole brain as a function of age, expressed as a percentage of the structure size at that age, is shown in Figure 2B, which displays both a GAMM fit based on the strictly longitudinal data, controlling for gestational age at birth and sex, and the gradient of the growth trajectory fit to all the data. The pronounced features of these plots are very high initial rate of growth, approximately 1%/d, and decreasing rate of growth during the subsequent months, with indications of tapering off to 0.4%/d near 3 months of age. Plots for the other ROIs examined are shown in eFigures 4 and 5 in the Supplement.
To our knowledge, early brain development in healthy term-born or term-equivalent preterm-born infants has not previously been extensively studied, leaving considerable gaps in knowledge of this crucial developmental period. Using longitudinal analysis of MR images, we found that brain development in neonates is most rapid in the days immediately after birth, when whole-brain growth rate initially is approximately 1%/d, slowing to 0.4%/d by the end of the first 3 months, with overall growth of 64% in 90 days. Consistent with this rapid growth, we found that longer gestation led to larger brain size at birth. Male infants showed greater increase in whole-brain volume over time, although this difference at birth was significant only when we controlled for head circumference or body length at birth. The cerebellum grew at the highest rate, more than doubling in volume in 90 days, while the hippocampus grew at the slowest rate, increasing in volume by only 47% in 90 days. As with the whole brain, the growth rate for all ROIs decreased substantially during the first 3 months. We found left-right asymmetry in multiple ROIs, particularly the lateral ventricles where the left was larger than the right by 462 mm3 on average (about 5% of lateral ventricle volume at 2 months). The left caudate and amygdala were also larger than the right. However, the right hippocampus, thalamus, putamen, and cerebellum were larger than the left. Finally, we calculated volume-by-age percentile plots for the whole brain and for multiple ROIs, which may be useful for assessing individual brain development or response to therapy.
Regional volume increases in the human brain during the first 3 months after birth arise from multiple factors, including postnatal migration of neurons from the ventricular (or proliferative) zone, with total numbers of cortical neurons increasing by 23%-30% from birth to age 3 months26; synaptogenesis and proliferation; dendritic and axonal growth along with increased neuropil arborization; differentiation and proliferation of glia; and subcortical white matter myelination by oligodendrocytes.27,28 These processes occur in tandem with the competing processes of synaptic pruning and apoptosis28,29 that tend to reduce volume. Differences in regional growth rates during infancy probably reflect relative differences in developmental processes at this stage. For example, we found that the cerebellum—which constitutes 6.5% of the total volume of the brain at birth yet contains more than half of its neurons—undergoes the highest rate of growth during the first 3 months after birth, in agreement with findings of a cross-sectional study during the first 2 years of life,18 which may reflect the importance of early development of motor control. In contrast, the hippocampus is the most slowly growing region during the first 3 months, which suggests that the development of episodic or autobiographical memory is not a key process at this stage of life.
Our finding of larger left than right lateral ventricle is in agreement with an earlier in utero ultrasound study30 and cross-sectional studies of neonates.6,31 The asymmetries for the amygdala and thalamus are consistent with recent findings in adolescents,32 suggesting that the adolescent-stage asymmetry for each of these ROIs is already established in the neonatal period. Moreover, the hippocampal asymmetry is consistent with cross-sectional studies in neonates33 and in children and adolescents.34,35 It has been suggested that this asymmetry arises in the early adolescent years.32 Our results, however, indicate that it already occurs in the early postnatal period. Cerebral asymmetry has been associated with asymmetric or lateralized functional specializations seen in adults, including handedness, dexterity, and language abilities,36 and although little is known about the origins of anatomical and functional asymmetries in the brain37 they are thought to arise from asymmetric gene expression in the embryonic human cortex.38 In addition, several neurological disorders are believed to be developmental and are associated with atypical brain asymmetry,39 particularly schizophrenia40 and autism.41 Thus, early deviant brain asymmetry—which may be opposite from later brain asymmetry42—may provide an index for individuals being at risk for a neurodevelopmental disorder.
A limitation of this study is that longitudinal tissue contrast change was not explicitly modeled. Furthermore, depending on age, certain neighboring ROIs can appear similar on T1 and/or T2 images; for example, the caudate or thalamus may show similar intensity as the adjacent cerebral white matter. This problem might be ameliorated by use of additional MRI sequences, such as magnetization transfer imaging or diffusion tensor imaging. In cases of similar contrast, however, the boundary between ROIs may remain uncertain, and its location will be determined primarily from morphometric mapping of spatial priors derived from manual segmentation.
For the ROIs examined, the whole brain was the best delineated on T1-weighted and T2-weighted MR images, leading to the most accurate segmentation, followed by the cerebellum, thalamus, caudate, putamen, lateral ventricles, and hippocampus. However, other smaller structures—the pallidum, amygdala, and fourth ventricle—were least well defined. Resolution in the MR images was insufficient to accurately delineate the very thin early postnatal cortex, compounded by the poor contrast-to-noise ratio between the developing gray matter and largely unmyelinated white matter. Thus, we did not examine cortical development. The quality of many images was less than optimal owing to subject motion, a problem that could be mitigated by using prospective motion correction techniques.43- 45 With more images of higher quality, greater precision in ROI segmentation can be expected. Another source of error in growth trajectories comes from the inherent uncertainty in determining gestational age25: due to rapid growth, 1 week is a long time in fetal and neonatal development, and many gestational ages at birth were reported in whole-week units.
Despite these limitations, we accurately mapped out early postnatal whole-brain growth trajectories for male and female infants, which, to our knowledge, has not been done, and we provided the first estimates for growth trajectories of subcortical areas during the first 3 months after birth. Establishing normative data like these on larger and more diverse or representative samples, particularly volume-by-age percentile plots, could provide a valuable reference for assessing cerebral development and monitoring effects of intervention on brain growth in any infants with perinatal insults, during the most dynamic postnatal growth phase for the human brain. Regional growth rates and left-right asymmetries should also inform a deeper understanding of the relationship between brain structure and function when both are developing rapidly and may provide an early indicator for abnormal brain development or future neuropsychiatric disorders.
Accepted for Publication: May 12, 2014.
Corresponding Author: Dominic Holland, PhD, Multimodal Imaging Laboratory and Department of Neurosciences, University of California, San Diego, 8950 Villa La Jolla Dr, Ste C101, La Jolla, CA 92037 (email@example.com).
Published Online: August 11, 2014. doi:10.1001/jamaneurol.2014.1638.
Author Contributions: Dr Holland had full access to all of the data in the study and takes responsibility for the integrity of the data and the accuracy of the data analysis.
Study concept and design: Holland, Chang, Ernst, Dale.
Acquisition, analysis, or interpretation of data: Holland, Ernst, Curran, Buchthal, Alicata, Skranes, Johansen, Hernandez, Yamakawa, Kuperman, Dale.
Drafting of the manuscript: Holland, Chang.
Critical revision of the manuscript for important intellectual content: All authors.
Statistical analysis: Holland, Dale.
Obtained funding: Chang, Ernst, Dale.
Administrative, technical, or material support: Holland, Chang, Ernst, Kuperman, Dale.
Study supervision: Holland, Chang, Ernst, Buchthal, Skranes, Dale.
Conflict of Interest Disclosures: Dr Dale is a founder and holds equity in CorTechs Labs, Inc, and also serves on its Scientific Advisory Board. The terms of this arrangement have been reviewed and approved by the University of California, San Diego, in accordance with its conflict of interest policies. No other disclosures were reported.
Funding/Support: This study was supported by grants from the National Institutes of Neurological Disorders and Stroke (U54 NS056883), the National Institute on Drug Abuse (2K24-DA16170 and RC2-DA029475), and the National Institute on Minority Health and Health Disparities (G12-MD007601-26).
Role of the Sponsor: The funding sources had no role in the design and conduct of the study; collection, management, analysis, or interpretation of the data; preparation, review, or approval of the manuscript; and decision to submit the manuscript for publication.
Additional Contributions: We thank the children and parents who volunteered to participate in this study; our clinical research staff, Christine Cloak, PhD, Lynn Anderson, BA, and Krista Bridges, RN, and our MR technician, Eric Cunningham, BS, at John A. Burns School of Medicine, University of Hawaii; and our image processing staff, Yoonho Chung, BS, and Matt Erhart, BS, at the University of California, San Diego. We are also grateful to Terry Jernigan, PhD, and Linda McEvoy, PhD, the University of California, San Diego, for invaluable discussions regarding the results and the writing of the manuscript.